Difference between revisions of "Chromosome II History"

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(Annotation Changes)
(Annotation Changes without sequence changes)
 
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=Annotation Changes ''without sequence changes''=
 
=Annotation Changes ''without sequence changes''=
{| class="wikitable" style="border-spacing: 2px; border: 1px solid darkgray;"
+
{| border="1" style="border-collapse:collapse; width:90%" cellpadding="6"
 
! Date  !! Affected Features  
 
! Date  !! Affected Features  
 
|-
 
|-
| 2014-11-18|| TLC1
+
| 2014-11-18|| [https://www.yeastgenome.org/locus/TLC1 TLC1]<br>
 +
The feature_type annotation of [https://www.yeastgenome.org/locus/TLC1 TLC1] was changed from ncRNA to telomerase_RNA_gene (SO:0001643) as part of SGD's genome annotation revision R64.2.
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The feature_type annotation of TLC1 was changed from ncRNA to telomerase_RNA_gene (SO:0001643) as part of SGD's genome annotation revision R64.2.
+
| 2014-11-18|| [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS209 ARS209], [https://www.yeastgenome.org/locus/ARS211 ARS211], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS216 ARS216], [https://www.yeastgenome.org/locus/ARS217 ARS217], [https://www.yeastgenome.org/locus/ARS224 ARS224], [https://www.yeastgenome.org/locus/ARS231 ARS231]<br>
 +
As part of SGD's genome annotation revision R64.2, new ARS consensus sequences were annotated within the following ARS elements on Chromosome II based on Liachko et al. 2013: [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS231 ARS231], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS209 ARS209], [https://www.yeastgenome.org/locus/ARS211 ARS211], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS216 ARS216], [https://www.yeastgenome.org/locus/ARS217 ARS217], [https://www.yeastgenome.org/locus/ARS224 ARS224]. <br> <br>
 +
'''Liachko I, et al.''' (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704. <br>
 +
[https://www.yeastgenome.org/reference/S000152760 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/23241746 PubMed] | [https://genome.cshlp.org/content/23/4/698 Full-Text]
 
|-
 
|-
| 2014-11-18|| ARS207, ARS208, ARS209, ARS211, ARS214, ARS216, ARS217, ARS224, ARS231
+
| 2014-11-18|| [https://www.yeastgenome.org/locus/ARS202 ARS202], [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS209 ARS209], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS224 ARS224], [https://www.yeastgenome.org/locus/ARS228 ARS228], [https://www.yeastgenome.org/locus/ARS231 ARS231]<br>
 +
The chromosomal coordinates of the following ARS elements on Chromosome II were updated based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: [https://www.yeastgenome.org/locus/ARS202 ARS202], [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS231 ARS231], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS209 ARS209], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS224 ARS224], [https://www.yeastgenome.org/locus/ARS228 ARS228].<br><br>
 +
'''Liachko I, et al.''' (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704. <br>
 +
[https://www.yeastgenome.org/reference/S000152760 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/23241746 PubMed] | [https://genome.cshlp.org/content/23/4/698 Full-Text]
 
|-
 
|-
| || style="border: 1px solid darkgray;" |As part of SGD's genome annotation revision R64.2, new ARS consensus sequences were annotated within the following ARS elements on Chromosome II based on Liachko et al. 2013: ARS207, ARS231, ARS208, ARS209, ARS211, ARS214, ARS216, ARS217, ARS224.
+
| 2014-11-18|| [https://www.yeastgenome.org/locus/ARS200 ARS200], [https://www.yeastgenome.org/locus/ARS201 ARS201], [https://www.yeastgenome.org/locus/ARS203 ARS203], [https://www.yeastgenome.org/locus/ARS206 ARS206], [https://www.yeastgenome.org/locus/ARS217 ARS217]<br>
Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704
+
The following new ARS elements on Chromosome II were added to the genome annotation based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: [https://www.yeastgenome.org/locus/ARS200 ARS200], [https://www.yeastgenome.org/locus/ARS201 ARS201], [https://www.yeastgenome.org/locus/ARS203 ARS203], [https://www.yeastgenome.org/locus/ARS206 ARS206], [https://www.yeastgenome.org/locus/ARS217 ARS217].<br><br>
 
+
'''Liachko I, et al.''' (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704. <br>
 
+
[https://www.yeastgenome.org/reference/S000152760 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/23241746 PubMed] | [https://genome.cshlp.org/content/23/4/698 Full-Text]
 
|-
 
|-
| 2014-11-18|| ARS202, ARS207, ARS208, ARS209, ARS214, ARS224, ARS228, ARS231
+
| 2014-11-18|| [https://www.yeastgenome.org/locus/ETC8 ETC8]<br>
 +
The following previously unmapped features were identified as nuclear matrix attachment sites and assigned chromosomal coordinates based on Hiraga et al. 2012 as part of SGD's genome annotation revision R64.2: [https://www.yeastgenome.org/locus/ETC1 ETC1], [https://www.yeastgenome.org/locus/ETC2 ETC2], [https://www.yeastgenome.org/locus/ETC3 ETC3], [https://www.yeastgenome.org/locus/ETC4 ETC4], [https://www.yeastgenome.org/locus/ETC6 ETC6], [https://www.yeastgenome.org/locus/ETC7 ETC7], [https://www.yeastgenome.org/locus/ETC8 ETC8].<br><br>
 +
'''Hiraga SI, et al.''' (2012) TFIIIC localizes budding yeast ETC sites to the nuclear periphery. Mol Biol Cell 23(14):2741-54 <br>
 +
[https://www.yeastgenome.org/reference/S000149071 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/22496415 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3395662 Full-Text]
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The chromosomal coordinates of the following ARS elements on Chromosome II were updated based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: ARS202, ARS207, ARS231, ARS208, ARS209, ARS214, ARS224, ARS228.
+
| 2009-05-07|| [https://www.yeastgenome.org/locus/YBR073W YBR073W]<br>
Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704
+
The start site for [https://www.yeastgenome.org/locus/RDH54 RDH54]/[https://www.yeastgenome.org/locus/YBR073W YBR073W] was reinstated 102 nt (34 codons) upstream. This is a reversal of the start site change made to this ORF on 2003-09-22. Thank you to Nancy Hollingsworth for bringing this issue to our attention.<br><br>
 
+
'''Shinohara M, et al.''' (1997) Characterization of the roles of the Saccharomyces cerevisiae RAD54 gene and a homologue of RAD54, RDH54/TID1, in mitosis and meiosis. Genetics 147(4):1545-56 <br>
 +
[https://www.yeastgenome.org/reference/S000041992 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/9409820 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1208330 Full-Text] <br>
 +
'''Petukhova G, et al.''' (2000) Promotion of Rad51-dependent D-loop formation by yeast recombination factor Rdh54/Tid1. Genes Dev 14(17):2206-15 <br>
 +
[https://www.yeastgenome.org/reference/S000046962 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/10970884 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC316899 Full-Text] <br>
 +
'''Chi P, et al.''' (2006) Yeast recombination factor Rdh54 functionally interacts with the Rad51 recombinase and catalyzes Rad51 removal from DNA. J Biol Chem 281(36):26268-79 <br>
 +
[https://www.yeastgenome.org/reference/S000117052 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/16831867 Pubmed] | [http://www.jbc.org/content/281/36/26268.long Full-Text]
 +
'''Kwon Y, et al.''' (2008) ATP-dependent Chromatin Remodeling by the Saccharomyces cerevisiae Homologous Recombination Factor Rdh54. J Biol Chem 283(16):10445-52 <br>
 +
[https://www.yeastgenome.org/reference/S000125605 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/18292093 Pubmed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447626/ Full-Text]
  
 
|-
 
|-
| 2014-11-18|| ARS200, ARS201, ARS203, ARS206, ARS217
+
| 2009-05-07|| [https://www.yeastgenome.org/locus/ARS212 ARS212], [https://www.yeastgenome.org/locus/ARS213 ARS213], [https://www.yeastgenome.org/locus/ARS221 ARS221]<br>
|-
+
The following ARS elements on Chromosome 2 were added to the genome annotation based on Raveendranathan et al. 2006: [https://www.yeastgenome.org/locus/ARS212 ARS212], [https://www.yeastgenome.org/locus/ARS213 ARS213], and [https://www.yeastgenome.org/locus/ARS221 ARS221].<br><br>
| || style="border: 1px solid darkgray;" |The following new ARS elements on Chromosome II were added to the genome annotation based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: ARS200, ARS201, ARS203, ARS206, ARS217.
+
'''Raveendranathan M, et al.''' (2006) Genome-wide replication profiles of S-phase checkpoint mutants reveal fragile sites in yeast. EMBO J 25(15):3627-39 <br>
Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704
+
[https://www.yeastgenome.org/reference/S000117571 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/16888628 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538557 Full-Text]
 
 
  
 
|-
 
|-
| 2014-11-18|| ETC8
+
| 2007-07-09|| [https://www.yeastgenome.org/locus/YBR215W YBR215W]<br>
 +
The start of ORF [https://www.yeastgenome.org/locus/HPC2 HPC2]/[https://www.yeastgenome.org/locus/YBR215W YBR215W] was moved 90 nt upstream and an intron was added at relative coordinates 14..97 based on GenBank EF123149 and Juneau et al. 2007. According to Juneau et al. 2007, the intron is "inefficiently spliced" (splicing rate 85%). The ORF had been annotated as 1872 nt long, but is now 1962 nt in length.<br><br>
 +
'''Juneau K, et al.''' (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7 <br>
 +
[https://www.yeastgenome.org/reference/S000120506 SGD paper] | [https://www.yeastgenome.org/reference/S000120506 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1780280 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17244705&db=pmid YFGdb] <br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The following previously unmapped features were identified as nuclear matrix attachment sites and assigned chromosomal coordinates based on Hiraga et al. 2012 as part of SGD's genome annotation revision R64.2: ETC1, ETC2, ETC3, ETC4, ETC6, ETC7, ETC8.
+
| 2007-04-05|| [https://www.yeastgenome.org/locus/YBLCdelta7 YBLCdelta7], [https://www.yeastgenome.org/locus/YBRCdelta11 YBRCdelta11], [https://www.yeastgenome.org/locus/YBRCdelta14 YBRCdelta14], [https://www.yeastgenome.org/locus/YBRCdelta19 YBRCdelta19]<br>
Hiraga SI, et al. (2012) TFIIIC localizes budding yeast ETC sites to the nuclear periphery. Mol Biol Cell 23(14):2741-54
+
The following Ty1 LTRs on Chromosome II were mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick); the error has now been corrected, so that the LTRs are annotated on the Crick strand: [https://www.yeastgenome.org/locus/YBLCdelta7 YBLCdelta7], [https://www.yeastgenome.org/locus/YBRCdelta11 YBRCdelta11], [https://www.yeastgenome.org/locus/YBRCdelta14 YBRCdelta14], [https://www.yeastgenome.org/locus/YBRCdelta19 YBRCdelta19].<br><br>
 
 
 
 
 
|-
 
|-
| 2009-05-07|| YBR073W
+
| 2007-04-05|| [https://www.yeastgenome.org/locus/YBRCtau2 YBRCtau2]<br>
 +
[https://www.yeastgenome.org/locus/YBRWtau2 YBRWtau2], a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name [https://www.yeastgenome.org/locus/YBRCtau2 YBRCtau2] and is annotated on the Crick strand. The name [https://www.yeastgenome.org/locus/YBRWtau2 YBRWtau2] is being retained as an alias.<br><br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The start site for RDH54/YBR073W was reinstated 102 nt (34 codons) upstream. This is a reversal of the start site change made to this ORF on 2003-09-22. Thank you to Nancy Hollingsworth for bringing this issue to our attention.
+
| 2007-04-05|| [https://www.yeastgenome.org/locus/YBLCtau1 YBLCtau1]<br>
Shinohara M, et al. (1997) Characterization of the roles of the Saccharomyces cerevisiae RAD54 gene and a homologue of RAD54, RDH54/TID1, in mitosis and meiosis. Genetics 147(4):1545-56
+
[https://www.yeastgenome.org/locus/YBLWtau1 YBLWtau1], a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name [https://www.yeastgenome.org/locus/YBLCtau1 YBLCtau1] and is annotated on the Crick strand. The name [https://www.yeastgenome.org/locus/YBLWtau1 YBLWtau1] is being retained as an alias.<br><br>
 
 
Petukhova G, et al. (2000) Promotion of Rad51-dependent D-loop formation by yeast recombination factor Rdh54/Tid1. Genes Dev 14(17):2206-15
 
 
 
Chi P, et al. (2006) Yeast recombination factor Rdh54 functionally interacts with the Rad51 recombinase and catalyzes Rad51 removal from DNA. J Biol Chem 281(36):26268-79
 
 
 
Kwon Y, et al. (2008) ATP-dependent Chromatin Remodeling by the Saccharomyces cerevisiae Homologous Recombination Factor Rdh54. J Biol Chem 283(16):10445-52
 
 
 
 
 
 
|-
 
|-
| 2009-05-07|| ARS212, ARS213, ARS221
+
| 2007-04-04|| [https://www.yeastgenome.org/locus/YBR089C-A YBR089C-A]<br>
 +
[https://www.yeastgenome.org/locus/NHP6B NHP6B]/[https://www.yeastgenome.org/locus/YBR089C-A YBR089C-A] mRNA contains an intron in the 5' untranslated region (UTR).<br><br>
 +
'''Miura F, et al.''' (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51 <br>
 +
[https://www.yeastgenome.org/reference/S000119659 SGD papers] | [https://www.ncbi.nlm.nih.gov/pubmed/17101987 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1693835/ Full-Text] | [https://www.pnas.org/content/suppl/2006/11/14/0605645103.DC1 Web Supplement] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17101987&db=pmid YFGdb] <br>
 +
'''Juneau K, et al.''' (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7 <br>
 +
[https://www.yeastgenome.org/reference/S000120506 SGD paper] | [https://www.yeastgenome.org/reference/S000120506 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1780280 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17244705&db=pmid YFGdb] <br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The following ARS elements on Chromosome 2 were added to the genome annotation based on Raveendranathan et al. 2006: ARS212, ARS213, and ARS221.
+
| 2007-04-04|| [https://www.yeastgenome.org/locus/YBL092W YBL092W]<br>
Raveendranathan M, et al. (2006) Genome-wide replication profiles of S-phase checkpoint mutants reveal fragile sites in yeast. EMBO J 25(15):3627-39
+
[https://www.yeastgenome.org/locus/RPL32 RPL32]/[https://www.yeastgenome.org/locus/YBL092W YBL092W] mRNA contains an intron in the 5' untranslated region (UTR).<br><br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 +
'''Miura F, et al.''' (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51 <br>
 +
[https://www.yeastgenome.org/reference/S000119659 SGD papers] | [https://www.ncbi.nlm.nih.gov/pubmed/17101987 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1693835/ Full-Text] | [https://www.pnas.org/content/suppl/2006/11/14/0605645103.DC1 Web Supplement] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17101987&db=pmid YFGdb] <br>
 +
'''Juneau K, et al.''' (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7 <br>
 +
[https://www.yeastgenome.org/reference/S000120506 SGD paper] | [https://www.yeastgenome.org/reference/S000120506 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1780280 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17244705&db=pmid YFGdb] <br>
  
 
|-
 
|-
| 2007-07-09|| YBR215W
+
| 2007-04-04|| [https://www.yeastgenome.org/locus/YBL072C YBL072C]<br>
|-
+
[https://www.yeastgenome.org/locus/RPS8A RPS8A]/[https://www.yeastgenome.org/locus/YBL072C YBL072C] mRNA contains an intron in the 5' untranslated region (UTR).<br><br>
| || style="border: 1px solid darkgray;" |The start of ORF HPC2/YBR215W was moved 90 nt upstream and an intron was added at relative coordinates 14..97 based on GenBank EF123149 and Juneau et al. 2007. According to Juneau et al. 2007, the intron is "inefficiently spliced" (splicing rate 85%). The ORF had been annotated as 1872 nt long, but is now 1962 nt in length.
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
+
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 
+
'''Miura F, et al.''' (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51 <br>
 +
[https://www.yeastgenome.org/reference/S000119659 SGD papers] | [https://www.ncbi.nlm.nih.gov/pubmed/17101987 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1693835/ Full-Text] | [https://www.pnas.org/content/suppl/2006/11/14/0605645103.DC1 Web Supplement] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17101987&db=pmid YFGdb] <br>
 +
'''Juneau K, et al.''' (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7 <br>
 +
[https://www.yeastgenome.org/reference/S000120506 SGD paper] | [https://www.yeastgenome.org/reference/S000120506 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1780280 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=17244705&db=pmid YFGdb] <br>
  
 
|-
 
|-
| 2007-04-05|| YBLCdelta7, YBRCdelta11, YBRCdelta14, YBRCdelta19
+
| 2006-10-04|| [https://www.yeastgenome.org/locus/LSR1 LSR1]<br>
|-
+
The start site and the stop site for [https://www.yeastgenome.org/locus/LSR1 LSR1]/[https://www.yeastgenome.org/locus/snR20 snR20] (aka U2 snRNA) were each moved 4 nt upstream, to the positions determined by Ares M. Jr. (1986). Thanks to Wayne Decatur for bringing this update to our attention.<br><br>
| || style="border: 1px solid darkgray;" |The following Ty1 LTRs on Chromosome II were mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick); the error has now been corrected, so that the LTRs are annotated on the Crick strand: YBLCdelta7, YBRCdelta11, YBRCdelta14, YBRCdelta19.
+
'''Ares M Jr''' (1986) U2 RNA from yeast is unexpectedly large and contains homology to vertebrate U4, U5, and U6 small nuclear RNAs. Cell 47(1):49-59<br>
|-
+
[https://www.yeastgenome.org/reference/S000043315 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/3530502 PubMed] | [https://www.sciencedirect.com/science/article/pii/009286748690365X?via%3Dihub Full-Text]
| 2007-04-05|| YBRCtau2
 
|-
 
| || style="border: 1px solid darkgray;" |YBRWtau2, a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name YBRCtau2 and is annotated on the Crick strand. The name YBRWtau2 is being retained as an alias.
 
|-
 
| 2007-04-05|| YBLCtau1
 
|-
 
| || style="border: 1px solid darkgray;" |YBLWtau1, a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name YBLCtau1 and is annotated on the Crick strand. The name YBLWtau1 is being retained as an alias.
 
|-
 
| 2007-04-04|| YBR089C-A
 
|-
 
| || style="border: 1px solid darkgray;" |NHP6B/YBR089C-A mRNA contains an intron in the 5' untranslated region (UTR).
 
Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
 
 
 
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
 
 
 
  
 
|-
 
|-
| 2007-04-04|| YBL092W
+
| 2006-10-02|| [https://www.yeastgenome.org/locus/ARS230 ARS230], [https://www.yeastgenome.org/locus/ARS231 ARS231]<br>
|-
+
[https://www.yeastgenome.org/locus/ARS230 ARS230] (also known as [https://www.yeastgenome.org/locus/ARS201 ARS201].5) and [https://www.yeastgenome.org/locus/ARS231 ARS231] (also known as [https://www.yeastgenome.org/locus/ARS207 ARS207].5) were added to the genome annotation based on Nieduszynski et al. 2006.<br><br>
| || style="border: 1px solid darkgray;" |RPL32/YBL092W mRNA contains an intron in the 5' untranslated region (UTR).
+
'''Nieduszynski CA, et al.''' (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9<br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000117321 SGD papers] | [https://www.ncbi.nlm.nih.gov/pubmed/16847347 PubMed Entry] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1522085 Full-Text] | [http://genesdev.cshlp.org/content/20/14/1874/suppl/DC1 Web Supplement]
 
 
Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
 
 
 
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
 
 
 
  
 
|-
 
|-
| 2007-04-04|| YBL072C
+
| 2006-09-07|| [https://www.yeastgenome.org/locus/ARS202 ARS202], [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS211 ARS211], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS215 ARS215], [https://www.yeastgenome.org/locus/ARS216 ARS216], [https://www.yeastgenome.org/locus/ARS220 ARS220], [https://www.yeastgenome.org/locus/ARS222 ARS222], [https://www.yeastgenome.org/locus/ARS224 ARS224], [https://www.yeastgenome.org/locus/ARS225 ARS225], [https://www.yeastgenome.org/locus/ARS228 ARS228]<br>
|-
+
The following ARS elements on Chromosome II were added to SGD based on Nieduszynski et al. 2006: [https://www.yeastgenome.org/locus/ARS202 ARS202], [https://www.yeastgenome.org/locus/ARS207 ARS207], [https://www.yeastgenome.org/locus/ARS208 ARS208], [https://www.yeastgenome.org/locus/ARS211 ARS211], [https://www.yeastgenome.org/locus/ARS214 ARS214], [https://www.yeastgenome.org/locus/ARS215 ARS215], [https://www.yeastgenome.org/locus/ARS216 ARS216], [https://www.yeastgenome.org/locus/ARS220 ARS220], [https://www.yeastgenome.org/locus/ARS222 ARS222], [https://www.yeastgenome.org/locus/ARS224 ARS224], [https://www.yeastgenome.org/locus/ARS225 ARS225], [https://www.yeastgenome.org/locus/ARS228 ARS228].<br><br>
| || style="border: 1px solid darkgray;" |RPS8A/YBL072C mRNA contains an intron in the 5' untranslated region (UTR).
+
'''Nieduszynski CA, et al.''' (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9<br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000117321 SGD papers] | [https://www.ncbi.nlm.nih.gov/pubmed/16847347 PubMed Entry] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1522085 Full-Text] | [http://genesdev.cshlp.org/content/20/14/1874/suppl/DC1 Web Supplement]
  
Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
 
 
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
 
 
 
|-
 
| 2006-10-04|| LSR1
 
|-
 
| || style="border: 1px solid darkgray;" |The start site and the stop site for LSR1/snR20 (aka U2 snRNA) were each moved 4 nt upstream, to the positions determined by Ares M. Jr. (1986). Thanks to Wayne Decatur for bringing this update to our attention.
 
Ares M Jr (1986) U2 RNA from yeast is unexpectedly large and contains homology to vertebrate U4, U5, and U6 small nuclear RNAs. Cell 47(1):49-59
 
 
 
|-
 
| 2006-10-02|| ARS230, ARS231
 
|-
 
| || style="border: 1px solid darkgray;" |ARS230 (also known as ARS201.5) and ARS231 (also known as ARS207.5) were added to the genome annotation based on Nieduszynski et al. 2006.
 
Nieduszynski CA, et al. (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9
 
 
 
|-
 
| 2006-09-07|| ARS202, ARS207, ARS208, ARS211, ARS214, ARS215, ARS216, ARS220, ARS222, ARS224, ARS225, ARS228
 
|-
 
| || style="border: 1px solid darkgray;" |The following ARS elements on Chromosome II were added to SGD based on Nieduszynski et al. 2006: ARS202, ARS207, ARS208, ARS211, ARS214, ARS215, ARS216, ARS220, ARS222, ARS224, ARS225, ARS228.
 
Nieduszynski CA, et al. (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9
 
 
 
|-
 
| 2006-03-02|| ARS209
 
|-
 
| || style="border: 1px solid darkgray;" |This new ARS element ARS209 was added to the genome annotation based on Bouton & Smith 1986 and Wyrick et al. 2001.
 
Wyrick JJ, et al. (2001) Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins. Science 294(5550):2357-60
 
 
Bouton AH and Smith MM (1986) Fine-structure analysis of the DNA sequence requirements for autonomous replication of Saccharomyces cerevisiae plasmids. Mol Cell Biol 6(7):2354-63
 
 
 
|-
 
| 2005-11-10|| snR161
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |New snoRNA, snR161, added based on the work of Olivas et al. 1997 and Schattner et al. 2004. Note that Olivas et al. refer to this snoRNA as RNA161.
+
| 2006-03-02|| [https://www.yeastgenome.org/locus/ARS209 ARS209]<br>
Olivas WM, et al. (1997) Analysis of the yeast genome: identification of new non-coding and small ORF-containing RNAs. Nucleic Acids Res 25(22):4619-25
+
This new ARS element [https://www.yeastgenome.org/locus/ARS209 ARS209] was added to the genome annotation based on Bouton & Smith 1986 and Wyrick et al. 2001.<br><br>
 
+
'''Wyrick JJ, et al.''' (2001) Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins. Science 294(5550):2357-60 <br>
Schattner P, et al. (2004) Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome. Nucleic Acids Res 32(14):4281-96
+
[https://www.yeastgenome.org/reference/S000069019 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/11743203 PubMed] | [https://science.sciencemag.org/content/294/5550/2357 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=11743203&db=pmid YFGdb] | [https://www.ncbi.nlm.nih.gov/pubmed/11743187 Comments & Errata]<br>
 
+
'''Bouton AH and Smith MM''' (1986) Fine-structure analysis of the DNA sequence requirements for autonomous replication of Saccharomyces cerevisiae plasmids. Mol Cell Biol 6(7):2354-63 <br>
 +
[https://www.yeastgenome.org/reference/S000114516 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/3023929 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC367788 Full-Text]
  
 
|-
 
|-
| 2005-11-08|| YBR056C-B, YBR201C-A
+
| 2005-11-10|| [https://www.yeastgenome.org/locus/snR161 snR161]<br>
|-
+
New snoRNA, [https://www.yeastgenome.org/locus/snR161 snR161], added based on the work of Olivas et al. 1997 and Schattner et al. 2004. Note that Olivas et al. refer to this snoRNA as [https://www.yeastgenome.org/locus/RNA161 RNA161].<br><br>
| || style="border: 1px solid darkgray;" |Based on comparisons of the genome sequences of six Saccharomyces species, Cliften et al. 2003 suggested that two new ORFs, YBR056C-B and YBR201C-A, be added to the S. cerevisiae genome annotation.
+
'''Olivas WM, et al.''' (1997) Analysis of the yeast genome: identification of new non-coding and small ORF-containing RNAs. Nucleic Acids Res 25(22):4619-25 <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000064699 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/9358174 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC147069 Full-Text] <br>
 
+
'''Schattner P, et al.''' (2004) Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome. Nucleic Acids Res 32(14):4281-96<br>
 +
[https://www.yeastgenome.org/reference/S000081218 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/15306656 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC514388 Full-Text]
  
 
|-
 
|-
| 2005-11-07|| YBR286W
+
| 2005-11-08|| [https://www.yeastgenome.org/locus/YBR056C-B YBR056C-B], [https://www.yeastgenome.org/locus/YBR201C-A YBR201C-A]<br>
 +
Based on comparisons of the genome sequences of six Saccharomyces species, Cliften et al. 2003 suggested that two new ORFs, [https://www.yeastgenome.org/locus/YBR056C-B YBR056C-B] and [https://www.yeastgenome.org/locus/YBR201C-A YBR201C-A], be added to the S. cerevisiae genome annotation.<br><br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |After consultation with MIPS, SGD will incorporate the annotation change suggested by Kellis et al. 2003 for APE3/YBR286W. The start site is being moved 78 nt downstream from chromosomal coordinate 774618 to 774696, resulting in a predicted protein of 537 aa, as opposed to the previously annotated 563 aa. The 1692-nt ORF is now 1614 nt.
+
| 2005-11-07|| [https://www.yeastgenome.org/locus/YBR286W YBR286W]<br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
After consultation with MIPS, SGD will incorporate the annotation change suggested by Kellis et al. 2003 for [https://www.yeastgenome.org/locus/APE3 APE3]/[https://www.yeastgenome.org/locus/YBR286W YBR286W]. The start site is being moved 78 nt downstream from chromosomal coordinate 774618 to 774696, resulting in a predicted protein of 537 aa, as opposed to the previously annotated 563 aa. The 1692-nt ORF is now 1614 nt.<br><br>
 +
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
 +
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
  
 
|-
 
| 2004-10-12|| CEN2
 
|-
 
| || style="border: 1px solid darkgray;" |Centromeric DNA elements CDEI, CDEII, and CDEIII were annotated based on Wieland et al. 2001 and Espelin et al. 2003.
 
Wieland G, et al. (2001) Determination of the binding constants of the centromere protein Cbf1 to all 16 centromere DNAs of Saccharomyces cerevisiae. Nucleic Acids Res 29(5):1054-60
 
 
Espelin CW, et al. (2003) Binding of the essential Saccharomyces cerevisiae kinetochore protein Ndc10p to CDEII. Mol Biol Cell 14(11):4557-68
 
 
 
|-
 
| 2004-04-01|| RUF8
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |Feature annotation removed per John McCutcheon and Sean Eddy.
+
| 2004-10-12|| [https://www.yeastgenome.org/locus/CEN2 CEN2]<br>
McCutcheon J and Eddy S (2004) Corrigendum: Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics Nucleic Acids Res 32 (15):4713
+
Centromeric DNA elements CDEI, CDEII, and CDEIII were annotated based on Wieland et al. 2001 and Espelin et al. 2003.<br><br>
 
+
'''Wieland G, et al.''' (2001) Determination of the binding constants of the centromere protein Cbf1 to all 16 centromere DNAs of Saccharomyces cerevisiae. Nucleic Acids Res 29(5):1054-60 <br>
 +
[https://www.yeastgenome.org/reference/S000059647 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/11222754 PubMed] [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC29730 Full-Text]<br>
 +
'''Espelin CW, et al.''' (2003) Binding of the essential Saccharomyces cerevisiae kinetochore protein Ndc10p to CDEII. Mol Biol Cell 14(11):4557-68 <br>
 +
[https://www.yeastgenome.org/reference/S000074756 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/13679521 PubMed] [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC266772 Full-Text]
  
 
|-
 
|-
| 2004-04-01|| YBR230W-A
+
| 2004-04-01|| [https://www.yeastgenome.org/locus/RUF8 RUF8]<br>
|-
+
Feature annotation removed per John McCutcheon and Sean Eddy.<br><br>
| || style="border: 1px solid darkgray;" |ORF identified by John McCutcheon and Sean Eddy.
+
'''McCutcheon JP and Eddy SR''' (2004) Detailed correction to: Computational identification of noncoding RNAs in Saccharomyces cerevisiae by comparative genomics Nucleic Acids Res. 31:4119-4128, 2003 <br>
McCutcheon JP and Eddy SR (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28
+
[https://www.yeastgenome.org/reference/S000175486 SGD paper] | [https://www.yeastgenome.org/sgdpub/mccutcheon_ruf_correction.pdf Web Supplement]
 
 
  
 
|-
 
|-
| 2004-01-07|| YBL091C-A
+
| 2004-04-01|| [https://www.yeastgenome.org/locus/YBR230W-A YBR230W-A]<br>
|-
+
ORF identified by John McCutcheon and Sean Eddy.<br><br>
| || style="border: 1px solid darkgray;" |Based on comparison to related fungi, Brachat et al., Blandin et al., and Cliften et al. all proposed an intron and 5' extension for YBL091C-A. The resulting ORF is in the same frame with the start codon shifted 316 bp upstream; the protein has a 76-residue extension at the N-terminus.
+
'''McCutcheon JP and Eddy SR''' (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28 <br>
Blandin G, et al. (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6
+
[https://www.yeastgenome.org/reference/S000074006 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12853629 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC165953 Full-Text] | [https://www.yeastgenome.org/reference/S000175486 Comments & Errata]<br>
 
 
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45
 
 
 
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
  
 
|-
 
|-
| 2003-12-17|| YBR111W-A
+
| 2004-01-07|| [https://www.yeastgenome.org/locus/YBL091C-A YBL091C-A]<br>
|-
+
Based on comparison to related fungi, Brachat et al., Blandin et al., and Cliften et al. all proposed an intron and 5' extension for [https://www.yeastgenome.org/locus/YBL091C-A YBL091C-A]. The resulting ORF is in the same frame with the start codon shifted 316 bp upstream; the protein has a 76-residue extension at the N-terminus.<br><br>
| || style="border: 1px solid darkgray;" |The size of the first intron of YBR111W-A was increased and a second intron was added on the basis of conserved splice sites predicted by Cliften et al. 2003, as well as subsequent experimental evidence (GenBank AY278445). The chromosomal coordinates of the coding sequence have changed from 462094-462172..462175-462392 to 462094-462164..462245-462384..462455-462534.
+
'''Blandin G, et al.''' (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6 <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000065690 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/11152879 PubMed] | [https://febs.onlinelibrary.wiley.com/doi/full/10.1016/S0014-5793%2800%2902275-4 Full-Text]<br>
 
+
'''Brachat S, et al.''' (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45. <br>
 +
[https://www.yeastgenome.org/reference/S000073670 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12844361 PubMed] | [https://genomebiology.biomedcentral.com/articles/10.1186/gb-2003-4-7-r45 Full-Text] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
 
|-
 
|-
| 2003-12-17|| YBR255C-A
+
| 2003-12-17|| [https://www.yeastgenome.org/locus/YBR111W-A YBR111W-A]<br>
|-
+
The size of the first intron of [https://www.yeastgenome.org/locus/YBR111W-A YBR111W-A] was increased and a second intron was added on the basis of conserved splice sites predicted by Cliften et al. 2003, as well as subsequent experimental evidence (GenBank AY278445). The chromosomal coordinates of the coding sequence have changed from 462094-462172..462175-462392 to 462094-462164..462245-462384..462455-462534.<br><br>
| || style="border: 1px solid darkgray;" |The boundaries of the intron in ORF YBR255C-A were shifted by 1 bp on 5' end and 2 bp on 3' end on basis of conserved splice sites in other fungal species as predicted by Blandin et al. 2000.
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
Blandin G, et al. (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6
+
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 
 
  
 
|-
 
|-
| 2003-09-22|| YBR280C
+
| 2003-12-17|| [https://www.yeastgenome.org/locus/YBR255C-A YBR255C-A]<br>
|-
+
The boundaries of the intron in ORF [https://www.yeastgenome.org/locus/YBR255C-A YBR255C-A] were shifted by 1 bp on 5' end and 2 bp on 3' end on basis of conserved splice sites in other fungal species as predicted by Blandin et al. 2000.<br><br>
| || style="border: 1px solid darkgray;" |The start site for YBR280C was moved 15 nt (5 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Blandin G, et al.''' (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6 <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000065690 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/11152879 PubMed] | [https://febs.onlinelibrary.wiley.com/doi/full/10.1016/S0014-5793%2800%2902275-4 Full-Text]<br>
 
 
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
  
 
|-
 
|-
| 2003-09-22|| YBR172C
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR280C YBR280C]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/YBR280C YBR280C] was moved 15 nt (5 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
| || style="border: 1px solid darkgray;" |The start site for SMY2/YBR172C was moved 150 nt (50 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
|-
 
| 2003-09-22|| YBL089W
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The start site for AVT5/YBL089W was moved 150 nt (50 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. The numbering for both the nucleotides in the DNA coding sequence and the amino acids in the predicted protein have been updated. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR172C YBR172C]<br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
The start site for [https://www.yeastgenome.org/locus/SMY2 SMY2]/[https://www.yeastgenome.org/locus/YBR172C YBR172C] was moved 150 nt (50 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
 
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
 
|-
 
|-
| 2003-09-22|| YBL068W
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBL089W YBL089W]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/AVT5 AVT5]/[https://www.yeastgenome.org/locus/YBL089W YBL089W] was moved 150 nt (50 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. The numbering for both the nucleotides in the DNA coding sequence and the amino acids in the predicted protein have been updated. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
| || style="border: 1px solid darkgray;" |The start site for PRS4/YBL068W was moved 84 nt (28 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 
 
  
 
|-
 
|-
| 2003-09-22|| YBR095C
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBL068W YBL068W]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/PRS4 PRS4]/[https://www.yeastgenome.org/locus/YBL068W YBL068W] was moved 84 nt (28 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
| || style="border: 1px solid darkgray;" |The start site for YBR095C was moved 69 nt (23 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
|-
 
| 2003-09-22|| YBR073W
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The start site for RDH54/YBR073W was moved 102 nt (34 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR095C YBR095C]<br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
The start site for [https://www.yeastgenome.org/locus/YBR095C YBR095C] was moved 69 nt (23 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
 
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
 
|-
 
|-
| 2003-09-22|| YBR058C
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR073W YBR073W]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/RDH54 RDH54]/[https://www.yeastgenome.org/locus/YBR073W YBR073W] was moved 102 nt (34 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
| || style="border: 1px solid darkgray;" |The start site for UBP14/YBR058C was moved 66 nt (22 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
|-
 
| 2003-09-22|| YBR122C
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The start site for MRPL36/YBR122C was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine; 3) The predicted protein translated from the conserved methionine contains a predicted mitochondrial targeting signal sequence (using both MitoProt (MIPS) and Predotar), while the predicted protein translated from the previously annotated S. cerevisiae start codon does not.
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR058C YBR058C]<br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
The start site for [https://www.yeastgenome.org/locus/UBP14 UBP14]/[https://www.yeastgenome.org/locus/YBR058C YBR058C] was moved 66 nt (22 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
 
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
 
|-
 
|-
| 2003-09-22|| YBR264C
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR122C YBR122C]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/MRPL36 MRPL36]/[https://www.yeastgenome.org/locus/YBR122C YBR122C] was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine; 3) The predicted protein translated from the conserved methionine contains a predicted mitochondrial targeting signal sequence (using both MitoProt (MIPS) and Predotar), while the predicted protein translated from the previously annotated S. cerevisiae start codon does not.<br><br>
| || style="border: 1px solid darkgray;" |The start site for YPT10/YBR264C was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 
+
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
+
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
 
 
  
 
|-
 
|-
| 2003-09-22|| YBR263W
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR264C YBR264C]<br>
|-
+
The start site for [https://www.yeastgenome.org/locus/YPT10 YPT10]/[https://www.yeastgenome.org/locus/YBR264C YBR264C] was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
| || style="border: 1px solid darkgray;" |The start site for SHM1/YBR263W was moved 225 nt (75 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.
+
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54
+
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6
 
 
 
|-
 
| 2003-09-09|| TEL02L, TEL02R
 
 
|-
 
|-
| || style="border: 1px solid darkgray;" |The chromosomal locations for the following telomeric elements on Chromosome 2 were generously provided by Ed Louis and Dave Barton (University of Leicester, UK): TEL02L, TEL02L-XC, TEL02L-XR, TEL02L-YP, TEL02R, TEL02R-XC, TEL02R-XR, TEL02R-TR.  
+
| 2003-09-22|| [https://www.yeastgenome.org/locus/YBR263W YBR263W]<br>
 +
The start site for [https://www.yeastgenome.org/locus/SHM1 SHM1]/[https://www.yeastgenome.org/locus/YBR263W YBR263W] was moved 225 nt (75 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.<br><br>
 +
'''Kellis M, et al.''' (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54. <br>
 +
[https://www.yeastgenome.org/reference/S000073327 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12748633 PubMed] | [https://www.nature.com/articles/nature01644 Full-Text] | [https://www.yeastgenome.org/reference/S000140268 Comments & Errata] <br>
 +
'''Cliften P, et al.''' (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6. <br>
 +
[https://www.yeastgenome.org/reference/S000073948 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12775844 PubMed] | [https://science.sciencemag.org/content/301/5629/71.long Full-Text] | [https://science.sciencemag.org/content/suppl/2003/07/03/1084337.DC1 Web Supplement] <br>
  
Note that TEL02L does have telomeric repeats (TEL02L-TR), but they are missing from the genome annotation due to sequencing difficulties encountered during the initial genome sequencing efforts in the 1990s.
 
 
|-
 
|-
| 2003-07-29|| YBL039C-A, YBR121C-A, YBR196C-B, YBR221W-A
+
| 2003-09-09|| [https://www.yeastgenome.org/locus/TEL02L TEL02L], [https://www.yeastgenome.org/locus/TEL02R TEL02R]<br>
 +
The chromosomal locations for the following telomeric elements on Chromosome 2 were generously provided by Ed Louis and Dave Barton (University of Leicester, UK): [https://www.yeastgenome.org/locus/TEL02L TEL02L], [https://www.yeastgenome.org/locus/TEL02L-X TEL02L-X]C, [https://www.yeastgenome.org/locus/TEL02L-X TEL02L-X]R, [https://www.yeastgenome.org/locus/TEL02L-Y TEL02L-Y]P, [https://www.yeastgenome.org/locus/TEL02R TEL02R], [https://www.yeastgenome.org/locus/TEL02R-X TEL02R-X]C, [https://www.yeastgenome.org/locus/TEL02R-X TEL02R-X]R, [https://www.yeastgenome.org/locus/TEL02R-T TEL02R-T]R. <br><br>
 +
Note that [https://www.yeastgenome.org/locus/TEL02L TEL02L] does have telomeric repeats ([https://www.yeastgenome.org/locus/TEL02L-T TEL02L-T]R), but they are missing from the genome annotation due to sequencing difficulties encountered during the initial genome sequencing efforts in the 1990s.
 
|-
 
|-
| || style="border: 1px solid darkgray;" |Thanks to Oshiro et al., Velculescu et al., and Basrai et al. for providing the coordinates of the following four ORFs on Chromosome 2: YBL039C-A, YBR121C-A, YBR196C-B, YBR221W-A.
+
| 2003-07-29|| [https://www.yeastgenome.org/locus/YBL039C-A YBL039C-A], [https://www.yeastgenome.org/locus/YBR121C-A YBR121C-A], [https://www.yeastgenome.org/locus/YBR196C-B YBR196C-B], [https://www.yeastgenome.org/locus/YBR221W-A YBR221W-A]<br>
Basrai MA, et al. (1999) NORF5/HUG1 is a component of the MEC1-mediated checkpoint response to DNA damage and replication arrest in Saccharomyces cerevisiae. Mol Cell Biol 19(10):7041-9
+
Thanks to Oshiro et al., Velculescu et al., and Basrai et al. for providing the coordinates of the following four ORFs on Chromosome 2: [https://www.yeastgenome.org/locus/YBL039C-A YBL039C-A], [https://www.yeastgenome.org/locus/YBR121C-A YBR121C-A], [https://www.yeastgenome.org/locus/YBR196C-B YBR196C-B], [https://www.yeastgenome.org/locus/YBR221W-A YBR221W-A].<br><br>
 +
'''Basrai MA, et al.''' (1999) NORF5/HUG1 is a component of the MEC1-mediated checkpoint response to DNA damage and replication arrest in Saccharomyces cerevisiae. Mol Cell Biol 19(10):7041-9 <br>
 +
[https://www.yeastgenome.org/reference/S000042214 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/10490641 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC84699 Full-Text] <br>
 +
'''Velculescu VE, et al.''' (1997) Characterization of the yeast transcriptome. Cell 88(2):243-51. <br>
 +
[https://www.yeastgenome.org/reference/S000058021 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/9008165 PubMed] | [https://www.sciencedirect.com/science/article/pii/S0092867400818450?via%3Dihub Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=9008165&db=pmid YFGdb] <br>
 +
'''Oshiro G, et al.''' (2002) Parallel identification of new genes in Saccharomyces cerevisiae. Genome Res 12(8):1210-20. <br>
 +
[https://www.yeastgenome.org/reference/S000073672 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12176929 PubMed] | [https://genome.cshlp.org/content/12/8/1210.long Full-Text] | [https://genome.cshlp.org/content/12/8/1210/suppl/DC1 Web Supplement] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=12176929&db=pmid YFGdb] <br>
  
Velculescu VE, et al. (1997) Characterization of the yeast transcriptome. Cell 88(2):243-51
 
 
Oshiro G, et al. (2002) Parallel identification of new genes in Saccharomyces cerevisiae. Genome Res 12(8):1210-20
 
 
 
|-
 
| 2003-07-29|| YBR056W-A, YBR109W-A, YBR126W-B
 
|-
 
| || style="border: 1px solid darkgray;" |Thanks to MIPS for providing the coordinates of the following three ORFs on Chromosome 2: YBR056W-A, YBR109W-A, YBR126W-B.
 
 
|-
 
|-
| 2003-07-29|| YBL006W-A, YBL071C-B, YBL100W-C, YBL113W-A, YBR126W-A, YBR131C-A, YBR141W-A, YBR182C-A, YBR223W-A, YBR296C-A, YBR298C-A
+
| 2003-07-29|| [https://www.yeastgenome.org/locus/YBR056W-A YBR056W-A], [https://www.yeastgenome.org/locus/YBR109W-A YBR109W-A], [https://www.yeastgenome.org/locus/YBR126W-B YBR126W-B]<br>
 +
Thanks to MIPS for providing the coordinates of the following three ORFs on Chromosome 2: [https://www.yeastgenome.org/locus/YBR056W-A YBR056W-A], [https://www.yeastgenome.org/locus/YBR109W-A YBR109W-A], [https://www.yeastgenome.org/locus/YBR126W-B YBR126W-B].<br><br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |Thanks to Kumar et al. for providing the coordinates of the following 11 ORFs on Chromosome 2: YBL006W-A, YBL071C-B, YBL101W-C, YBL113W-A, YBR126W-A, YBR131C-A, YBR141W-A, YBR182C-A, YBR223W-A, YBR296C-A, YBR298C-A.
+
| 2003-07-29|| [https://www.yeastgenome.org/locus/YBL006W-A YBL006W-A], [https://www.yeastgenome.org/locus/YBL071C-B YBL071C-B], [https://www.yeastgenome.org/locus/YBL100W-C YBL100W-C], [https://www.yeastgenome.org/locus/YBL113W-A YBL113W-A], [https://www.yeastgenome.org/locus/YBR126W-A YBR126W-A], [https://www.yeastgenome.org/locus/YBR131C-A YBR131C-A], [https://www.yeastgenome.org/locus/YBR141W-A YBR141W-A], [https://www.yeastgenome.org/locus/YBR182C-A YBR182C-A], [https://www.yeastgenome.org/locus/YBR223W-A YBR223W-A], [https://www.yeastgenome.org/locus/YBR296C-A YBR296C-A], [https://www.yeastgenome.org/locus/YBR298C-A YBR298C-A]<br>
Kumar A, et al. (2002) An integrated approach for finding overlooked genes in yeast. Nat Biotechnol 20(1):58-63
+
Thanks to Kumar et al. for providing the coordinates of the following 11 ORFs on Chromosome 2: [https://www.yeastgenome.org/locus/YBL006W-A YBL006W-A], [https://www.yeastgenome.org/locus/YBL071C-B YBL071C-B], [https://www.yeastgenome.org/locus/YBL101W-C YBL101W-C], [https://www.yeastgenome.org/locus/YBL113W-A YBL113W-A], [https://www.yeastgenome.org/locus/YBR126W-A YBR126W-A], [https://www.yeastgenome.org/locus/YBR131C-A YBR131C-A], [https://www.yeastgenome.org/locus/YBR141W-A YBR141W-A], [https://www.yeastgenome.org/locus/YBR182C-A YBR182C-A], [https://www.yeastgenome.org/locus/YBR223W-A YBR223W-A], [https://www.yeastgenome.org/locus/YBR296C-A YBR296C-A], [https://www.yeastgenome.org/locus/YBR298C-A YBR298C-A].<br><br>
 
+
'''Kumar A, et al.''' (2002) An integrated approach for finding overlooked genes in yeast. Nat Biotechnol 20(1):58-63. <br>
 +
[https://www.yeastgenome.org/reference/S000073673 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/11753363 PubMed] | [https://www.nature.com/articles/nbt0102-58 Full-Text] | [http://yfgdb.princeton.edu/cgi-bin/display.cgi?id=11753363&db=pmid YFGdb] | [https://www.yeastgenome.org/reference/S000141796 Comments & Errata] <br>
  
 
|-
 
|-
| 2003-07-29|| YBL008W-A, YBL068W-A, YBL103C-A, YBR072C-A, YBR076C-A, YBR196C-A, YBR200W-A
+
| 2003-07-29|| [https://www.yeastgenome.org/locus/YBL008W-A YBL008W-A], [https://www.yeastgenome.org/locus/YBL068W-A YBL068W-A], [https://www.yeastgenome.org/locus/YBL103C-A YBL103C-A], [https://www.yeastgenome.org/locus/YBR072C-A YBR072C-A], [https://www.yeastgenome.org/locus/YBR076C-A YBR076C-A], [https://www.yeastgenome.org/locus/YBR196C-A YBR196C-A], [https://www.yeastgenome.org/locus/YBR200W-A YBR200W-A]<br>
|-
+
Thanks to Kessler et al. for providing the coordinates of the following seven ORFs on Chromosome 2: [https://www.yeastgenome.org/locus/YBL008W-A YBL008W-A], [https://www.yeastgenome.org/locus/YBL068W-A YBL068W-A], [https://www.yeastgenome.org/locus/YBL103C-A YBL103C-A], [https://www.yeastgenome.org/locus/YBR072C-A YBR072C-A], [https://www.yeastgenome.org/locus/YBR076C-A YBR076C-A], [https://www.yeastgenome.org/locus/YBR196C-A YBR196C-A], [https://www.yeastgenome.org/locus/YBR200W-A YBR200W-A].<br><br>
| || style="border: 1px solid darkgray;" |Thanks to Kessler et al. for providing the coordinates of the following seven ORFs on Chromosome 2: YBL008W-A, YBL068W-A, YBL103C-A, YBR072C-A, YBR076C-A, YBR196C-A, YBR200W-A.
+
'''Kessler MM, et al.''' (2003) Systematic discovery of new genes in the Saccharomyces cerevisiae genome. Genome Res 13(2):264-71. <br>
Kessler MM, et al. (2003) Systematic discovery of new genes in the Saccharomyces cerevisiae genome. Genome Res 13(2):264-71
+
[https://www.yeastgenome.org/reference/S000073671 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12566404 PubMed] | [https://genome.cshlp.org/content/13/2/264.long Full-Text] <br>
 
 
  
 
|-
 
|-
| 2003-07-29|| YBL039W-B, YBR111W-A
+
| 2003-07-29|| [https://www.yeastgenome.org/locus/YBL039W-B YBL039W-B], [https://www.yeastgenome.org/locus/YBR111W-A YBR111W-A]<br>
|-
+
Thanks to Brachat et al. for providing the coordinates of the following two ORFs on Chromosome 2 based on homology to Ashbya gossypii: [https://www.yeastgenome.org/locus/YBL039W-B YBL039W-B], [https://www.yeastgenome.org/locus/YBR111W-A YBR111W-A].<br><br>
| || style="border: 1px solid darkgray;" |Thanks to Brachat et al. for providing the coordinates of the following two ORFs on Chromosome 2 based on homology to Ashbya gossypii: YBL039W-B, YBR111W-A.
+
'''Brachat S, et al.''' (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45. <br>
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45
+
[https://www.yeastgenome.org/reference/S000073670 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12844361 PubMed] | [https://genomebiology.biomedcentral.com/articles/10.1186/gb-2003-4-7-r45 Full-Text] <br>
 
 
  
 
|-
 
|-
| 2003-03-06|| RUF8
+
| 2003-03-06|| [https://www.yeastgenome.org/locus/RUF8 RUF8]<br>
|-
+
Thanks to John McCutcheon and Sean Eddy for providing the coordinates for the following RNA features: [https://www.yeastgenome.org/locus/SNR82 SNR82], [https://www.yeastgenome.org/locus/SNR83 SNR83], [https://www.yeastgenome.org/locus/SNR84 SNR84], [https://www.yeastgenome.org/locus/RUF4 RUF4], [https://www.yeastgenome.org/locus/RUF5 RUF5]-1, [https://www.yeastgenome.org/locus/RUF5 RUF5]-2, [https://www.yeastgenome.org/locus/RUF6 RUF6], [https://www.yeastgenome.org/locus/RUF7 RUF7], and [https://www.yeastgenome.org/locus/RUF8 RUF8].<br><br>
| || style="border: 1px solid darkgray;" |Thanks to John McCutcheon and Sean Eddy for providing the coordinates for the following RNA features: SNR82, SNR83, SNR84, RUF4, RUF5-1, RUF5-2, RUF6, RUF7, and RUF8.
+
'''McCutcheon JP and Eddy SR''' (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28 <br>
McCutcheon JP and Eddy SR (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28
+
[https://www.yeastgenome.org/reference/S000074006 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/12853629 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC165953 Full-Text] | [https://www.yeastgenome.org/reference/S000175486 Comments & Errata]<br>
 
 
  
 
|-
 
|-
| 2001-01-30|| YBL071W-A
+
| 2001-01-30|| [https://www.yeastgenome.org/locus/YBL071W-A YBL071W-A]<br>
 +
ORF added based on similarity to an S. pombe gene (information submitted by Valerie Wood).<br><br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |ORF added based on similarity to an S. pombe gene (information submitted by Valerie Wood).
+
| 2000-08-11|| [https://www.yeastgenome.org/locus/YBR089C-A YBR089C-A]<br>
 +
old name: [https://www.yeastgenome.org/locus/YBR090C-A YBR090C-A]; new name: [https://www.yeastgenome.org/locus/YBR089C-A YBR089C-A]; date: 11/1998; old coord: ChrII 426447 426148; SGDID: S0002157; Name changed due to nomenclature<br><br>
 
|-
 
|-
| 2000-08-11|| YBR089C-A
+
| 2000-07-14|| [https://www.yeastgenome.org/locus/YBR186W YBR186W]<br>
|-
+
Davis et al. demonstrated an intron and 3' exon in [https://www.yeastgenome.org/locus/PCH2 PCH2]/[https://www.yeastgenome.org/locus/YBR186W YBR186W] that were not previously annotated. The addition of this intron and exon alters the C-terminus of the protein product and increases the protein size from 537 to 564 amino acids.<br><br>
| || style="border: 1px solid darkgray;" |old name: YBR090C-A; new name: YBR089C-A; date: 11/1998; old coord: ChrII 426447 426148; SGDID: S0002157; Name changed due to nomenclature
+
'''Davis CA, et al.''' (2000) Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast. Nucleic Acids Res 28(8):1700-6<br>
|-
+
[https://www.yeastgenome.org/reference/S000042737 SGD paper] | [https://www.ncbi.nlm.nih.gov/pubmed/10734188 PubMed] | [https://www.ncbi.nlm.nih.gov/pmc/articles/PMC102823 Full-Text]<br>
| 2000-07-14|| YBR186W
 
|-
 
| || style="border: 1px solid darkgray;" |Davis et al. demonstrated an intron and 3' exon in PCH2/YBR186W that were not previously annotated. The addition of this intron and exon alters the C-terminus of the protein product and increases the protein size from 537 to 564 amino acids.
 
Davis CA, et al. (2000) Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast. Nucleic Acids Res 28(8):1700-6
 
 
 
  
 
|-
 
|-
| 1999-11-17|| YBL059C-A
+
| 1999-11-17|| [https://www.yeastgenome.org/locus/YBL059C-A YBL059C-A]<br>
 +
A new ORF, [https://www.yeastgenome.org/locus/YBL059C-A YBL059C-A], was identified from EST analysis (Evan Hurowitz in Pat Brown's lab).<br><br>
 
|-
 
|-
| || style="border: 1px solid darkgray;" |A new ORF, YBL059C-A, was identified from EST analysis (Evan Hurowitz in Pat Brown's lab).
+
| 1998-05-21|| [https://www.yeastgenome.org/locus/YBL091C-A YBL091C-A], [https://www.yeastgenome.org/locus/YBL107W-A YBL107W-A]<br>
|-
+
The following 27 ORFs were added to the genome annotation based on Velculescu et al. 1997: [https://www.yeastgenome.org/locus/YBL091C-A YBL091C-A], [https://www.yeastgenome.org/locus/YBL107W-A YBL107W-A], [https://www.yeastgenome.org/locus/YCR018C-A YCR018C-A], [https://www.yeastgenome.org/locus/YCR102W-A YCR102W-A], [https://www.yeastgenome.org/locus/YDL130W-A YDL130W-A], [https://www.yeastgenome.org/locus/YDR034C-A YDR034C-A], [https://www.yeastgenome.org/locus/YDR034W-B YDR034W-B], [https://www.yeastgenome.org/locus/YDR363W-A YDR363W-A], [https://www.yeastgenome.org/locus/YDR525W-A YDR525W-A], [https://www.yeastgenome.org/locus/YER048W-A YER048W-A], [https://www.yeastgenome.org/locus/YER091C-A YER091C-A], [https://www.yeastgenome.org/locus/YER138W-A YER138W-A], [https://www.yeastgenome.org/locus/YGR122C-A YGR122C-A], [https://www.yeastgenome.org/locus/YIR020W-B YIR020W-B], [https://www.yeastgenome.org/locus/YKL033W-A YKL033W-A], [https://www.yeastgenome.org/locus/YKL053C-A YKL053C-A], [https://www.yeastgenome.org/locus/YKL162C-A YKL162C-A], [https://www.yeastgenome.org/locus/YLL018C-A YLL018C-A], [https://www.yeastgenome.org/locus/YLR262C-A YLR262C-A], [https://www.yeastgenome.org/locus/YML081C-A YML081C-A], [https://www.yeastgenome.org/locus/YMR046W-A YMR046W-A], [https://www.yeastgenome.org/locus/YMR158C-B YMR158C-B], [https://www.yeastgenome.org/locus/YMR194C-A YMR194C-A], [https://www.yeastgenome.org/locus/YNR032C-A YNR032C-A], [https://www.yeastgenome.org/locus/YOL013W-A YOL013W-A], [https://www.yeastgenome.org/locus/YOR298C-A YOR298C-A], and [https://www.yeastgenome.org/locus/YPR002C-A YPR002C-A]. <br><br>
| 1998-05-21|| YBL091C-A, YBL107W-A
 
|-
 
| || style="border: 1px solid darkgray;" |The following 27 ORFs were added to the genome annotation based on Velculescu et al. 1997: YBL091C-A, YBL107W-A, YCR018C-A, YCR102W-A, YDL130W-A, YDR034C-A, YDR034W-B, YDR363W-A, YDR525W-A, YER048W-A, YER091C-A, YER138W-A, YGR122C-A, YIR020W-B, YKL033W-A, YKL053C-A, YKL162C-A, YLL018C-A, YLR262C-A, YML081C-A, YMR046W-A, YMR158C-B, YMR194C-A, YNR032C-A, YOL013W-A, YOR298C-A, and YPR002C-A.  
 
 
 
 
|}
 
|}

Latest revision as of 13:33, 2 October 2019

This page lists all sequence and annotation changes that have been made to the Chromosome II systematic reference sequence since its intial release on 1996-07-31.

  • The sequence of Chromosome II has been updated 192 times, affecting 122 features.
  • The annotation of Chromosome II has been updated 49 times, affecting 88 features.

Current and past versions can be obtained from SGD's Download site.


Sequence Changes

Date Affected Features Start Coordinate of Change End Coordinate of Change Type of Change Old Sequence New Sequence
2011-02-03 YBR068C 375081 375081 Substitution C A
375272 375272 Substitution T A
374011 374011 Substitution T A
Nucleotide substitutions within the coding region of BAP2/YBR068C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 139 is now Valine rather than Glutamic Acid, and residue 203 is now Tryptophan rather than Glycine.
New    373969  GAAGTCAAGGTCAATCTTGTCGAGGGGATTTAATAGCGTAAAATCACGGTTGTAAACCAT  374028
               ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Old    373966  GAAGTCAAGGTCAATCTTGTCGAGGGGATTTAATAGCGTAAAATCTCGGTTGTAAACCAT  374025
New    375049  AAGAATATAAATGTCCGGATTTATTTTATCATTCCAAAATTGAATAGTCATAGACGCGGT  375108
               ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Old    375046  AAGAATATAAATGTCCGGATTTATTTTATCATTCCCAAATTGAATAGTCATAGACGCGGT  375105
New    375229  ATAGGTTACCGCCATCTCACCTGCAGCTTGGATCATGAAGTACGTCACGAAAGAAACCAA  375288
               |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Old    375226  ATAGGTTACCGCCATCTCACCTGCAGCTTGGATCATGAAGTACGTCTCGAAAGAAACCAA  375285

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR097W 439496 439496 Substitution T G
437344 437344 Substitution A G
Nucleotide change(s) in the coding region of VPS15/YBR097W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 134 is now Alanine rather than Threonine, and residue 851 is now Arginine rather than Isoleucine.
New    437325  ATTCATTGCTTTCCAGTTGTTAAATGCATTAAAGGACATTCATAATCTGAATATTGTCCA  437384
               ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Old    437319  ATTCATTGCTTTCCAGTTGTTAAATACATTAAAGGACATTCATAATCTGAATATTGTCCA  437378
New    439485  CTTAACTGCTGAAGACAGAAATTGGATTGATAAGTTCCACATTATTGGGCTAACAGAAAA  439544
               ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old    439479  CTTAACTGCTGAAGACATAAATTGGATTGATAAGTTCCACATTATTGGGCTAACAGAAAA  439538

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR045C 328382 328382 Insertion T
A single nucleotide was inserted within ORF GIP1/YBR045C, altering its coding sequence. The start, stop, and majority of the reading frame remain the same, but the C-terminus has changed and the annotated protein is now 66 amino acids longer.
New    328369  CTCAGTCTATAATTTTCTGCTTCATTTCTCTGCCTTTTATACTCTGTATATTGAAAATAA  328428
               ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Old    328368  CTCAGTCTATAATTT-CTGCTTCATTTCTCTGCCTTTTATACTCTGTATATTGAAAATAA  328426

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR044C 324366 324366 Insertion T
One nucleotide was inserted within ORF TCM62/YBR044C, very near its 3' end, altering its coding sequence. The start, stop, and majority of reading frame remain the same, but the C-terminus is different and the annotated protein sequence is now one amino acid shorter.
New    324349  TGTGCCGTTCAGGCTTTTTGTATACACATGTGATAATTGTATTACAGCTTGTAAGTAATT  324408
               |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Old    324349  TGTGCCGTTCAGGCTTTT-GTATACACATGTGATAATTGTATTACAGCTTGTAAGTAATT  324407

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR007C 250403 250403 Substitution C G
250039 250039 Substitution T G
Two nucleotide substitutions within the coding region of DSF2/YBR007C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 205 is now Serine rather than Arginine, and residue 327 is now Proline rather than Threonine.
New    250012  AGACCGTTTAGGAGATGGTTTGATGGGTGTTGTATCACTCTTAGTTAACTTGAGTTTGGA  250071
               |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Old    250013  AGACCGTTTAGGAGATGGTTTGATGGTTGTTGTATCACTCTTAGTTAACTTGAGTTTGGA  250072
New    250372  CCTATATTTCTCGAAGTTGAAAGGATTAGGGCTATTTGTGCTTCTATTGCCATTTTCAAG  250431
               |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Old    250373  CCTATATTTCTCGAAGTTGAAAGGATTAGGCCTATTTGTGCTTCTATTGCCATTTTCAAG  250432

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL105C 17455 17455 Substitution A C
15835 15835 Substitution T C
15332 15332 Substitution G C
The substitution of three nucleotides within the coding region of PKC1/YBL105C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 81 is now Cysteine rather than Phenylalanine, residue 621 is now Arginine rather than Lysine, and residue 789 is now Alanine rather than Proline.
New    15301   TGCGGAGATTGTTGATCAGTGGTTCTGGAGGCATGAGTACTTGTAGGAGCCAAGGACACT  15360
               ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Old    15301   TGCGGAGATTGTTGATCAGTGGTTCTGGAGGGATGAGTACTTGTAGGAGCCAAGGACACT  15360
New    15791   TAAATTTATTTAGTTTCTCACGCCCGTGCGTTTGTAGTGAAATTCTTTTATCAATAATAG  15850
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    15791   TAAATTTATTTAGTTTCTCACGCCCGTGCGTTTGTAGTGAAATTTTTTTATCAATAATAG  15840
New    17411   CATTTGGCGATTTGGTAGAAAGAAACCCGTATTCCTTCGAATTGCATCGCTCATTATCTT  17470
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    17411   CATTTGGCGATTTGGTAGAAAGAAACCCGTATTCCTTCGAATTGAATCGCTCATTATCTT  17470

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL057C 113437 113437 Deletion G
One nucleotide was deleted within ORF PTH2/YBL057C, near its 5' end, altering its coding sequence. The stop and reading frame remain the same, but the start has been moved 18 nucleotides downstream and the annotated protein sequence is now six amino acids shorter.
New    113393  ATGGTGTAATTCGAAGAAACTGTCATCTTTTCCATTAAAAAG-ACGTTATCATGTTACTC  113451
               |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Old    113395  ATGGTGTAATTCGAAGAAACTGTCATCTTTTCCATTAAAAAGGACGTTATCATGTTACTC  113454

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL068W 92918 92920 Deletion CCG
92916 92916 Substitution G A
92679 92679 Substitution C A
Two nucleotide substitutions and one trinucleotide deletion were made within the ORF PRS4/YBL068W, altering its coding sequence. The start, stop, and reading frame remain the same, but the annotated protein is now one amino acid shorter.
New    92637   TTAATGATTTCTTGATGGAATTATTAATTTTAATTCATGCTTGCAAAATTGCATCTGCAA  92696
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    92635   TTAATGATTTCTTGATGGAATTATTAATTTTAATTCATGCTTGCCAAATTGCATCTGCAA  92694
New    92877   ACAACCTATATGCAGAACCAAGTGTTTTAAATTATATTAGAAC---GAAAACAGATTTCG  92933
               ||||||||||||||||||||||||||||||||||||||||| |   ||||||||||||||
Old    92875   ACAACCTATATGCAGAACCAAGTGTTTTAAATTATATTAGAGCCCGGAAAACAGATTTCG  92934

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR078W 394727 394727 Insertion C
One nucleotide was inserted within ORF ECM33/YBR078W, very near its 3' end, altering its coding sequence. The start, stop, and vast majority of reading frame remain the same, but the C-terminus is different and the annotated protein sequence is now 39 amino acids shorter.
New    394715  TGCTGCTGTTGGCGTTGCCTTACTATAAGATTAAAGCAACAATTTGTGTTTCTATTATTA  394774
               |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Old    394710  TGCTGCTGTTGGCGTTGC-TTACTATAAGATTAAAGCAACAATTTGTGTTTCTATTATTA  394768

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR076W 391277 391277 Insertion A
390442 390442 Deletion G
A single G nucleotide was deleted near the 3' end, and a single A nucleotide was inserted near the 5' end of ORF ECM8/YBR076W, altering its coding sequence. The ORF was extended 49 amino acids at the N-terminus and shortened 34 amino acids at the C-terminus, resulting in a protein that is 15 amino acids larger. Although this protein is altered at both ends, the central portion of the protein remains the same.
New    390408  AAACCATCAAGAACAAAATATTCCCACAAAGGAAAATATT-CAACGATAGCGAAAATTTT  390466
               |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Old    390402  AAACCATCAAGAACAAAATATTCCCACAAAGGAAAATATTGCAACGATAGCGAAAATTTT  390461
New    391247  CGAACGAAATGTTTATATGTCCAAGTTATAACAAAAAGCAATTGATTGTGTACGCAAGAT  391306
               |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Old    391242  CGAACGAAATGTTTATATGTCCAAGTTATAACAAAA-GCAATTGATTGTGTACGCAAGAT  391300

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR137W 513365 513365 Substitution A G
A single nucleotide substitution within the coding region of YBR137W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 110 is now Glycine rather than Serine.
New    513345  CAAGTTTCTATATGGGCTGCAAGAAAGGTGACAAAACACCGGAGGAAAAGTTTTTTGTGG  513404
               |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Old    513339  CAAGTTTCTATATGGGCTGCAAGAAAAGTGACAAAACACCGGAGGAAAAGTTTTTTGTGG  513398

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR121C 481671 481675 Substitution TGATG GTAGT
Nucleotide substitutions within the coding region of GRS1/YBR121C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residues 563-564 are now TT rather than HH.
New    481665  TTGGCGACTTCAGTAGTAACAGGAACTAAATCTTTGTGGTTAGATAAAGGAACTAAAAGA  481724
               ||||||||||||  |  |||||||||||||||||||||||||||||||||||||||||||
Old    481659  TTGGCGACTTCATGATGAACAGGAACTAAATCTTTGTGGTTAGATAAAGGAACTAAAAGA  481718

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR108W 456359 456359 Substitution C T
A single nucleotide substitution within the coding region of AIM3/YBR108W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 515 is now Valine rather than Alanine.
New    456345  AGGACATTATGATGTAGATGTCAACATCATGCCACCTCCAAAACCTTTCAGACATGGACT  456404
               |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Old    456339  AGGACATTATGATGTAGATGCCAACATCATGCCACCTCCAAAACCTTTCAGACATGGACT  456398

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR295W 793986 793987 Substitution AC CA
Nucleotide substitutions within the coding region of PCA1/YBR295W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 382 is now Histidine rather than Threonine.
New    793961  GGATTGTGCTGTTACCTCAACTATTTCTGGACACTCTTCGAGTGAAATTTCAAGAATCGT  794020
               |||||||||||||||||||||||||||||||  |||||||||||||||||||||||||||
Old    793955  GGATTGTGCTGTTACCTCAACTATTTCTGGAACCTCTTCGAGTGAAATTTCAAGAATCGT  794014

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR289W 781354 781354 Substitution G C
780541 780541 Substitution C A
Two nucleotide substitutions within the coding region of SNF5/YBR289W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 564 is now Aspartic Acid rather than Glutamic Acid.
New    780521  ACAACCTCCCACCAATGTTCAGCCAACTATTGGCCAACTTCCTCAACTTCCAAAATTAAA  780580
               |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Old    780517  ACAACCTCCCACCAATGTTCAGCCCACTATTGGCCAACTTCCTCAACTTCCAAAATTAAA  780576
New    781311  GATATTGTCGTGGGACAAAACCAGTTAATCGATCAATTTGAGTGGGACATCTCTAATAGT  781370
               ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Old    781307  GATATTGTCGTGGGACAAAACCAGTTAATCGATCAATTTGAGTGGGAGATCTCTAATAGT  781366

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR288C 779354 779356 Substitution TAC ACT
Nucleotide substitutions within the coding region of APM3/YBR288C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residues 35-36 are now QS rather than RT.
New    779321  TCACTACTGCTATCTTCGAGCAATTGAGGACATGTGGACTGAACGCGGGTCCACAGGTGC  779380
               |||||||||||||||||||||||||||||||||||||   ||||||||||||||||||||
Old    779317  TCACTACTGCTATCTTCGAGCAATTGAGGACATGTGGTACGAACGCGGGTCCACAGGTGC  779376

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL099W 38210 38210 Substitution A T
38067 38067 Substitution C T
The substitution of 2 nucleotides within the coding region of ATP1/YBL099W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 340 is now Serine rather than Proline.
New    38039   AGCCTACCCTGGTGATGTCTTTTACTTGCATTCAAGATTGCTAGAAAGAGCCGCTAAGCT  38098
               ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Old    38036   AGCCTACCCTGGTGATGTCTTTTACTTGCATCCAAGATTGCTAGAAAGAGCCGCTAAGCT  38095
New    38169   GCTTATATTCCAACCAATGTTATTTCCATTACCGATGGTCAAATTTTCTTGGAAGCTGAA  38228
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    38166   GCTTATATTCCAACCAATGTTATTTCCATTACCGATGGTCAAATATTCTTGGAAGCTGAA  38225

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL097W 42377 42377 Substitution C G
A single nucleotide substitution within the coding region of BRN1/YBL097W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 517 is now Glycine rather than Alanine.
New    42359   CAAGATTGTTCATTAAACCGGGGCAGAAAATGAGTCTGTTCAGTCATAGGAAGCATACCA  42418
               ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Old    42356   CAAGATTGTTCATTAAACCGGCGCAGAAAATGAGTCTGTTCAGTCATAGGAAGCATACCA  42415

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL091C 48369 48369 Substitution A T
A single nucleotide substitution within the coding region of MAP2/YBL091C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 86 is now Aspartic Acid rather than Valine.
New    48359   ACGTGATTCTTCATCCGTGGTTCTTTGCAGATTGAAATCTTGATGATAGTCCATCCACGC  48418
               ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Old    48356   ACGTGATTCTTCAACCGTGGTTCTTTGCAGATTGAAATCTTGATGATAGTCCATCCACGC  48415

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL088C 55145 55145 Substitution A C
A single nucleotide substitution within the coding region of TEL1/YBL088C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 1412 is now Cysteine rather than Phenylalanine.
New    55139   GCATCAAGGCAGTATTTCCAAGTTTTTATTTTGATGAGATCCCGATGCTCTAAAAGCTTT  55198
               ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Old    55136   GCATCAAGGAAGTATTTCCAAGTTTTTATTTTGATGAGATCCCGATGCTCTAAAAGCTTT  55195

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL084C 68154 68155 Substitution TG GA
The substitution of two nucleotides within the coding region of CDC27/YBL084C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 430 is now Serine rather than Glutamine.
New    68108   CGACCTTAATATTAAAGCGAAATTATACATGATTTCAGGCAGCGTAATTGAATAATCACT  68167
               |||||||||||||||||||||||||||||||||||||||||||||||||  |||||||||
Old    68105   CGACCTTAATATTAAAGCGAAATTATACATGATTTCAGGCAGCGTAATTTGATAATCACT  68164

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR275C 754908 754908 Substitution T C
A single nucleotide substitution within the coding region of RIF1/YBR275C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 732 is now Alanine rather than Threonine.
New    754902  TACTTCAACAGCCTGGAACACAACTTTCATGATTTTATCGTATTCACGCTTGATGATCTG  754961
               ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Old    754897  TACTTCAACAGTCTGGAACACAACTTTCATGATTTTATCGTATTCACGCTTGATGATCTG  754956

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR270C 743936 743938 Substitution GCC CCG
Nucleotide substitutions within the coding region of BIT2/YBR270C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residues 152-153 are now SG rather than RA.
New    743922  AGTGCCGTAGTTTTTTGACCCGCTCCTGCTTCGATTTCTCATATTATCTTTTGAATTGGT  743981
               ||||||||||||||||||| | ||||||||||||||||||||||||||||||||||||||
Old    743917  AGTGCCGTAGTTTTTTGACGCCCTCCTGCTTCGATTTCTCATATTATCTTTTGAATTGGT  743976

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR266C, YBR267W 740291 740292 Substitution CG GC
Nucleotide substitutions within the coding regions of overlapping genes REI1/YBR267W and SLM6/YBR266C resulted in altered sequences for both proteins. The start, stop, and reading frames of both proteins remain the same, but protein residues 152-153 of REI1/YBR267W are now KL rather than NV, and protein residue 31 of SLM6/YBR266C is now Serine rather than Threonine.
New    740262  AGGAAGAAATGGCGGAAAGAGTAATGCAAGAAAAGCTACGCAACAGAGTCGATATTCCAC  740321
               ||||||||||||||||||||||||||||||||||  ||||||||||||||||||||||||
Old    740257  AGGAAGAAATGGCGGAAAGAGTAATGCAAGAAAACGTACGCAACAGAGTCGATATTCCAC  740316

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR265W 739341 739341 Substitution A T
A single nucleotide substitution within the coding region of TSC10/YBR265W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 255 is now Aspartic Acid rather than Glutamic Acid.
New    739302  CAAGCATGTGATATCATTGCCAAGTCGCTGGCCAGAGGTGATGATGACGTTTTTACAGAT  739361
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    739297  CAAGCATGTGATATCATTGCCAAGTCGCTGGCCAGAGGTGATGAAGACGTTTTTACAGAT  739356

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR094W 433377 433378 Substitution CG GC
432380 432380 Substitution T C
Nucleotide changes within the coding region of PBY1/YBR094W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 450 is now Alanine rather than Arginine.
New    432345  GAGTGGATATTAATCGATGGAACTCCAGCATCGTGCGCAAACATCGGGCTGCACCTATTG  432404
               ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Old    432339  GAGTGGATATTAATCGATGGAACTCCAGCATCGTGCGCAAATATCGGGCTGCACCTATTG  432398
New    433365  ACTATTGATTTAGATTATGCTGAATTTCTAGACGACGCATTAGATGAAAATTGGGAATTA  433424
               ||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||
Old    433359  ACTATTGATTTAGATTATCGTGAATTTCTAGACGACGCATTAGATGAAAATTGGGAATTA  433418

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR089C-A 426394 426396 Substitution CCG GCC
Nucleotide substitutions within the coding region of NHP6B/YBR089C-A resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 30 is now Glycine rather than Arginine.
New    426355  GACAATGTCTCTGTTTTCATTAGCAAAGAACATATAAGCTGACAAGCCCCTCTTAGGGGC  426414
               ||||||||||||||||||||||||||||||||||||||||||||| | ||||||||||||
Old    426349  GACAATGTCTCTGTTTTCATTAGCAAAGAACATATAAGCTGACAACCGCCTCTTAGGGGC  426408

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL056W 114870 114870 Substitution A G
114868 114868 Substitution G A
Two nucleotide substitutions within the coding region of PTC3/YBL056W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 369 is now Glycine rather than Aspartic Acid.
New    114832  CGACATGGAAATTGATGATCTTGATACCGAATTAGGCAGCAGTGCTACTCCCTCAAAGTT  114891
               ||||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||
Old    114835  CGACATGGAAATTGATGATCTTGATACCGAATTGGACAGCAGTGCTACTCCCTCAAAGTT  114894

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR207W 636336 636336 Substitution G A
636319 636322 Substitution GCTT ACTG
636306 636309 Substitution AATA TATG
636141 636141 Substitution A G
635890 635890 Deletion A
635882 635882 Insertion T
635247 635247 Substitution A G
635192 635192 Substitution A G
636342 636342 Substitution G A
635822 635822 Substitution C G
Nucleotide changes within the coding region of FTH1/YBR207W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 18 is now Glu rather than Lys, residue 36 is now Gly rather than Asp, residue 228 is now Glu rather than Gln, residues 249-250 are now VF rather than YS, residue 334 is now Gly rather than Glu, residues 389-390 are now IC rather than KY, and residues 399-401 are now EKY rather than GKC.
New    635196  GGAATCCTTAGAAATTGTTGTCATTGTTTCTATCCTGTTGACGATCGTCAAACAAGGTCT  635255
               | |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Old    635191  GAAATCCTTAGAAATTGTTGTCATTGTTTCTATCCTGTTGACGATCGTCAAACAAGATCT  635250
New    635803  ACCCAAAAAGGTGTGAAATTCAGTGAAAAGTACTCCTTCTTCATATTACCATTTATAACG  635862
               |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Old    635798  ACCCAAAAAGGTGTGAAATTCAGTCAAAAGTACTCCTTCTTCATATTACCATTTATAACG  635857
New    635863  ACTTTGAGAGAAGGGTTAGAAGCTGTTGTATTC-ATTGGAGGTATCGGTATTGACCAACC  635921
               ||||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||
Old    635858  ACTTTGAGAGAAGGGTTAGAAGCTG-TGTATTCAATTGGAGGTATCGGTATTGACCAACC  635916
New    636102  AGACTACGTCAACAAATGTAACGGTCAAGACATGAGTGAAGTAGGAAATGGACCCGGTTC  636161
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    636097  AGACTACGTCAACAAATGTAACGGTCAAGACATGAGTGAAGTAGAAAATGGACCCGGTTC  636156
New    636292  GCCTACTGGTTGGTATTAATATGCGCTTTGAAACTGCTAATGATAGAAGAAAAATACGGA  636351
               ||||||||||||||||||| || ||||||||| || ||||||||||||| ||||| ||||
Old    636287  GCCTACTGGTTGGTATTAAAATACGCTTTGAAGCTTCTAATGATAGAAGGAAAATGCGGA  636346

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL014C 201635 201635 Substitution G C
A single nucleotide substitution within the coding region of RRN6/YBL014C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 39 is now Lysine rather than Asparagine.
New    201592  CCTCGGCCAATGTATCATCTACTGGTCTTAGCCATTGTGGCTTTTCTTGCTTCTTCGTAG  201651
               |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Old    201595  CCTCGGCCAATGTATCATCTACTGGTCTTAGCCATTGTGGGTTTTCTTGCTTCTTCGTAG  201654

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL008W 210433 210433 Substitution A G
A single nucleotide substitution within the coding region of HIR1/YBL008W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 260 is now Valine rather than Methionine.
New    210412  AATGGGCCCGTAAGTTCTGTGGCAATTGTAAATAGAGGAACTTGGGATACAAATGTTAGT  210471
               |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Old    210415  AATGGGCCCGTAAGTTCTATGGCAATTGTAAATAGAGGAACTTGGGATACAAATGTTAGT  210474

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR043C 323835 323836 Substitution CG GC
Nucleotide substitutions within the coding region of QDR3/YBR043C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 37 is now Serine rather than Threonine.
Query  323809  CTATAATCGTTGTGCTCGCTGTGCGGGCTGCCGCTGCTTTCATCGCAGTGCATCATAACA  323868
               ||||||||||||||||||||||||||  ||||||||||||||||||||||||||||||||
Sbjct  323809  CTATAATCGTTGTGCTCGCTGTGCGGCGTGCCGCTGCTTTCATCGCAGTGCATCATAACA  323868

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR141C 527099 527099 Substitution A G
A single nucleotide substitution within the coding region of YBR141C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 312 is now Proline rather than Serine.
New    527085  AAAGCTACTCGGCTGCGGTGGAACTACCTGCAATTGATACAAACAATAGTACAACTTATT  527144
               |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Old    527079  AAAGCTACTCGGCTGCGGTGAAACTACCTGCAATTGATACAAACAATAGTACAACTTATT  527138

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR138C 514965 514966 Substitution AC CA
Nucleotide substitutions within the coding region of YBR138C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 122 is now Leucine rather than Cysteine.
New    514955  TAGGCTTGGCACCTATCAATTGTGAGCGACGCTTTCTTACATTCAATAACTGTTGGTTCT  515014
               ||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||
Old    514949  TAGGCTTGGCACCTATACATTGTGAGCGACGCTTTCTTACATTCAATAACTGTTGGTTCT  515008

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR004C 245111 245111 Substitution T A
A single nucleotide substitution within the coding region of GPI18/YBR004C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 187 is now Serine rather than Threonine.
New    245092  TACGGGCACGGAAATGGAGCATTCACGACTCCAAATACCAACAAATGCAAAAAAAAAAGA  245151
               ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old    245094  TACGGGCACGGAAATGGTGCATTCACGACTCCAAATACCAACAAATGCAAAAAAAAAAGA  245153

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL106C 13553 13553 Substitution G A
13492 13492 Substitution A T
13477 13477 Substitution G A
13102 13102 Substitution C A
11379 11379 Substitution A C
11345 11345 Substitution A G
11308 11309 Substitution AA TT
11053 11053 Substitution T C
Several nucleotide substitutions within the coding region of SRO77/YBL106C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 130 is now Isoleucine rather than Phenylalanine, residue 135 is now Serine rather than Proline, residue 260 is now Serine rather than Alanine, residue 834 is now Glycine rather than Valine, residue 858 is now Threonine rather than Serine, and 943 is now Glutamic Acid rather than Lysine.
New    11041   ACCTGTGATCTTCCGTACCGGGAGGTAACTTTCTGGCTGCATTACTACTACTGGAAGATA  11100
               |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Old    11041   ACCTGTGATCTTTCGTACCGGGAGGTAACTTTCTGGCTGCATTACTACTACTGGAAGATA  11100
New    11281   GTTGTGATATGTCAGCAGTATGATTCGTTCCGGTGGCACTTTCATTAAGTACTGAAATCA  11340
               |||||||||||||||||||||||||||  |||||||||||||||||||||||||||||||
Old    11281   GTTGTGATATGTCAGCAGTATGATTCGAACCGGTGGCACTTTCATTAAGTACTGAAATCA  11340
New    11341   AAGAGGCTTGGAATTTCCCTGTGCGAATGACAATGTCACCATTTTCTAATATAGATGAAT  11400
               |||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Old    11341   AAGAAGCTTGGAATTTCCCTGTGCGAATGACAATGTCAACATTTTCTAATATAGATGAAT  11400
New    13081   TGACATCCCAAAATACCAAGGAATTATCTTCATGGACAGTTAATATATGTAAGGAATTTG  13140
               ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Old    13081   TGACATCCCAAAATACCAAGGCATTATCTTCATGGACAGTTAATATATGTAAGGAATTTG  13140
New    13441   ATCCACTCTCGAGGCCAATCAGCATCCAATCCAAGGACGGATCAGTCTCAATACAAGTGA  13500
               |||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||
Old    13441   ATCCACTCTCGAGGCCAATCAGCATCCAATCCAAGGGCGGATCAGTCTCAAAACAAGTGA  13500
New    13501   TGCTGTTTGGACAGAAAACAGTAGTTAGAATCTGTTTCGAGTGTACTGAAAGAACTATTA  13560
               |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Old    13501   TGCTGTTTGGACAGAAAACAGTAGTTAGAATCTGTTTCGAGTGTACTGAAAGGACTATTA  13560

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR203W 631936 631936 Substitution G A
631924 631924 Substitution G A
631912 631912 Substitution G A
631907 631907 Substitution G A
631342 631353 Substitution GCTGGCGAAACG CGTTTCGCCAGC
631940 631940 Substitution C A
Nucleotide changes within the coding region of COS111/YBR203W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residues 727-731 are now TFRQH rather than SWRND, residue 917 is now Asparagine rather than Serine, and residue 921 is now Glutamic Acid rather than Glycine.
New    631303  TGTGTGGTGCAGGCAATATATGGTAAAGTATTTTGTAATGAGGACGTTTCGCCAGCATTT  631362
               ||||||||||||||||||||||||||||||||||||||||||||  |  ||  |  ||||
Old    631298  TGTGTGGTGCAGGCAATATATGGTAAAGTATTTTGTAATGAGGAGCTGGCGAAACGATTT  631357
New    631903  TGTTGGCGAAAATAACTACTATGCTGAAAGCATCATATAACGACTGCTCTCTTTTAACAG  631962
               ||||||||| |||| ||||||||||| ||||||||||| ||| |||||||||||||||||
Old    631898  TGTTGGCGAGAATAGCTACTATGCTGGAAGCATCATATGACGCCTGCTCTCTTTTAACAG  631957

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR285W 774080 774080 Substitution C G
A single nucleotide substitution within the coding region of YBR285W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 55 is now Aspartic Acid rather than Histidine.
New    774041  CTTAGAAAGCCCCACTGACGATAGCATGGAGGCGGACATTTCAGATAGAGAAATGGCTAC  774100
               ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Old    774037  CTTAGAAAGCCCCACTGACGATAGCATGGAGGCGGACATTTCACATAGAGAAATGGCTAC  774096

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR204C 633189 633189 Substitution T A
A single nucleotide substitution within the coding region of YBR204C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 63 is now Valine rather than Glutamic Acid.
New    633163  CCTTATTCTTGAATTTCGATCCGATAGTTGTACATTAAAAAACTCCTCATGTTCTGCGAT  633222
               ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Old    633158  CCTTATTCTTGAATTTCGATCCGATAGTTGTTCATTAAAAAACTCCTCATGTTCTGCGAT  633217

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR202W 627486 627487 Substitution AT TA
627433 627439 Substitution ATCCGGG CTTTGAA
627421 627421 Substitution T G
Nucleotide changes within the coding region of MCM7/YBR202W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residues 552-558 is now GINTTLN rather than VINTNPG, and residue 574 is now Tyrosine rather than Isoleucine.
New    627403  AACAATTTCGATATCCAAGGCGGGTATCAATACAACTTTGAACGCCAGAACCTCAATCTT  627462
               ||||||||||||||||||||||| ||||||||||| |  |  ||||||||||||||||||
Old    627398  AACAATTTCGATATCCAAGGCGGTTATCAATACAAATCCGGGCGCCAGAACCTCAATCTT  627457
New    627463  AGCGGCAGCAAATCCGTTGTATGGTAGATATAATCCTAGATTATCACCTCTGGACAATAT  627522
               ||||||||||||||||||||||||||||  ||||||||||||||||||||||||||||||
Old    627458  AGCGGCAGCAAATCCGTTGTATGGTAGAATTAATCCTAGATTATCACCTCTGGACAATAT  627517

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL080C 73450 73450 Substitution C G
A single nucleotide substitution within the coding region of PET112/YBL080C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 415 is now Proline rather than Alanine.
New    73438   CGAAAACCGGAGGAGGCAAAATTTCTTTTGCTTTGGCCAATGGAATTTGTAGCTTGTTCA  73497
               ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Old    73435   CGAAAACCGGAGGAGCCAAAATTTCTTTTGCTTTGGCCAATGGAATTTGTAGCTTGTTCA  73494

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL067C 95345 95345 Substitution G T
A single nucleotide substitution within the coding region of UBP13/YBL067C resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 180 is now Glutamine rather than Histidine.
New    95333   TCTTTCTTGGTTGATCAGATTCTCTTGATTTTTTTGGAAATTGCAATATATTTTCACGTA  95392
               |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Old    95335   TCTTTCTTGGGTGATCAGATTCTCTTGATTTTTTTGGAAATTGCAATATATTTTCACGTA  95394

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR074W 388774 388775 Substitution TT AA
Nucleotide substitutions within the coding region of YBR074W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 832 is now Asparagine rather than Phenylalanine.
New    388738  ACGAACCAATAGTTGCAGAGTTACTTTTGGAGGTGAAGGAGAACAGGGCTTGCACTTTAA  388797
               |||||||||||||||||||||||||||||||||||||||||  |||||||||||||||||
Old    388733  ACGAACCAATAGTTGCAGAGTTACTTTTGGAGGTGAAGGAGTTCAGGGCTTGCACTTTAA  388792

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR073W 385360 385361 Substitution CG GC
Nucleotide substitutions within the coding region of RDH54/YBR073W resulted in an altered protein sequence. The start, stop, and reading frame remain the same, but protein residue 752 is now Alanine rather than Arginine.
New    385318  TCTTGTTGAGTGCAAAATCGGGAGGTGTAGGATTGAATCTAGTCGGTGCTTCGCGACTTA  385377
               |||||||||||||||||||||||||||||||||||||||||||||||  |||||||||||
Old    385313  TCTTGTTGAGTGCAAAATCGGGAGGTGTAGGATTGAATCTAGTCGGTCGTTCGCGACTTA  385367

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR152W, YBR153W 547442 547442 Substitution A T
A single nucleotide substitution was made in the intergenic region between ORFs SPP381/YBR152W and RIB7/YBR153W.
New    547425  GCTTCTTTGTATTACTATCAACATTTTTAGAAGATATGTCTTTGACACCACTGTGTGAAG  547484
               ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Old    547419  GCTTCTTTGTATTACTATCAACAATTTTAGAAGATATGTCTTTGACACCACTGTGTGAAG  547478

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBLCtau1, tF(GAA)B 36312 36312 Substitution T A
A single nucleotide substitution was made in the intergenic region between Ty4 LTR YBLCtau1 and tRNA-Phe tF(GAA)B.
New    36299   TGTGCTTCAGTATTACATTTTTTGCCTTCAACGCCTTGATTGTTCTATTTTTGCTAATAA  36358
               |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Old    36296   TGTGCTTCAGTATTACTTTTTTTGCCTTCAACGCCTTGATTGTTCTATTTTTGCTAATAA  36355

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL099W, tF(GAA)B 36673 36673 Substitution A T
A single nucleotide substitution was made in the intergenic region between tRNA-Phe tF(GAA)B and ORF ATP1/YBL099W.
New    36659   ATTTATTGTAATTATTATACATTGGTCATATCAAATTCACATCAGACTTCAATTTTTCAA  36718
               ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old    36656   ATTTATTGTAATTATTAAACATTGGTCATATCAAATTCACATCAGACTTCAATTTTTCAA  36715

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR006W, YBR007C 248623 248623 Insertion T
A single nucleotide insertion was made in the intergenic region between ORFs UGA2/YBR006W and DSF2/YBR007C.
New    248572  GCATGTATAAATACTCTACTCCTCGTATATAGAAAGTTAAGTAAATTTTTTGAAAGAAAA  248631
               |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Old    248574  GCATGTATAAATACTCTACTCCTCGTATATAGAAAGTTAAGTAAATTTTT-GAAAGAAAA  248632

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR001C, YBR002C 241396 241396 Substitution G A
241359 241359 Substitution G A
Two separate single nucleotide substitutions were made in the intergenic region between ORFs NTH2/YBR001C and RER2/YBR002C.
New    241352  AAAGGAAAAATATAAATAAATAAATAAAATTGAGAAATAAAGATATTTAGTTTTAATGGA  241411
               ||||| |||||||||||||||||||||||||||||||||||| |||||||||||||||||
Old    241354  AAAGGGAAAATATAAATAAATAAATAAAATTGAGAAATAAAGGATATTAGTTTTAATGGA  241413

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL005W, YBLWdelta8 220413 220414 Substitution AG GA
A dinucleotide substitution was made in the intergenic region between ORF PDR3/YBL005W and Ty1 LTR YBLWdelta8.
New    220372  ATGACAATACTTCATATCCCTTCTTATGAAAACGCAAAGAAAATAGGGAAGCAGAGCATA  220431
               ||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||||
Old    220375  ATGACAATACTTCATATCCCTTCTTATGAAAACGCAAAAGAAATAGGGAAGCAGAGCATA  220434

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL105C, YBL106C 13982 13982 Substitution G A
13966 13966 Substitution C A
Two separate single nucleotide substitutions were made in the intergenic region between ORFs SRO77/YBL106C and PKC1/YBL105C.
New    13941   AGAAATATGTTAGTAGTAATATAATACTGAGCTGTTTCTTAAATGCTTCCTTAATAATGT  14000
               ||||||||||||||||||||||||| ||||||||||||||| ||||||||||||||||||
Old    13941   AGAAATATGTTAGTAGTAATATAATCCTGAGCTGTTTCTTAGATGCTTCCTTAATAATGT  14000

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS209 254720 254720 Insertion T
254719 254719 Insertion T
254616 254616 Substitution T A
254548 254548 Insertion A
254532 254532 Substitution C A
254495 254495 Substitution G T
Several nucleotide changes were made within ARS209.
New    254452  AAATATCCTTTTTTTTTTCTTTGCATTTGTCTTCTTTCATTTTAAATCTTCATAATCTTC  254511
               |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Old    254453  AAATATCCTTTTTTTTTTCTTTGCATTTGTCTTCTTTCATTTGAAATCTTCATAATCTTC  254512
New    254512  CGGAAAAACTAGTGATGCGAAATATTGTAGAGAAAAAGCGCAGGGCATTCCTATACTTAG  254571
               ||||||||||||||||||| |||||||||||||||| |||||||||||||||||||||||
Old    254513  CGGAAAAACTAGTGATGCGCAATATTGTAGAGAAAA-GCGCAGGGCATTCCTATACTTAG  254571
New    254572  TAATCACCATCATAACGTATTTTAAAATGAAGAAGCGAACCTCAAAGAATTTTCTATACA  254631
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    254572  TAATCACCATCATAACGTATTTTAAAATGAAGAAGCGAACCTCATAGAATTTTCTATACA  254631
New    254692  TATATTGCAGAAAATGTGCTAGTAATATTGTTCTCTCTGTTGTCAATGGGCTTACAATTG  254751
               |||||||||||||||||||||||||||| | |||||||||||||||||||||||||||||
Old    254692  TATATTGCAGAAAATGTGCTAGTAATAT-G-TCTCTCTGTTGTCAATGGGCTTACAATTG  254749

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR285W, YBR286W 774430 774430 Substitution C G
A single nucleotide substitution was made in the intergenic region between ORFs YBR285W and APE3/YBR286W.
New    774401  CTTATCGTCAGAAAGAGTGTTCTCTATGTTTTTGTGCTTCCATAAATATATAGTTCAAAA  774460
               ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Old    774397  CTTATCGTCAGAAAGAGTGTTCTCTATGTTTTTCTGCTTCCATAAATATATAGTTCAAAA  774456

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS221 631981 631981 Substitution A G
631940 631940 Substitution C A
631936 631936 Substitution G A
Three single nucleotide substitutions were made within ARS221.
New    631933  CATCATATAACGACTGCTCTCTTTTAACAGCATACGTTCTGTTAATTTATTTGGCCAAAT  631992
               |||||||| ||| |||||||||||||||||||||||||||||||||||||||| ||||||
Old    631928  CATCATATGACGCCTGCTCTCTTTTAACAGCATACGTTCTGTTAATTTATTTGACCAAAT  631987

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS213 390033 390033 Insertion C
A single nucleotide insertion was made within ARS213.
New    389998  ACTGACACTAAAAAAAGGGTCGTACGTCTTACTGGCAGCGCCGAAAAATGTTTCGAAAAT  390057
               ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Old    389993  ACTGACACTAAAAAAAGGGTCGTACGTCTTACTGGCAGCGC-GAAAAATGTTTCGAAAAT  390051

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR201C-A, YBR202W 625500 625500 Substitution T C
625435 625435 Insertion T
A single nucleotide insertion and a single nucleotide substitution were made in the intergenic region between ORFs YBR201C-A and MCM7/YBR202W.
New    625423  ATTTTCTCAATAACAGGTCGAGGCCCCTTCTACCCTTGAATGCTACTTATTACTCACTCA  625482
               ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old    625419  ATTTTCTCAATAACAGG-CGAGGCCCCTTCTACCCTTGAATGCTACTTATTACTCACTCA  625477
New    625483  TAATACATTGTATAAGCCTTCGCGTTTTTCACGGCCTCGAAAAAATTTTTCTTAACTAAT  625542
               |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Old    625478  TAATACATTGTATAAGCCTTCGTGTTTTTCACGGCCTCGAAAAAATTTTTCTTAACTAAT  625537

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR200W-A, YBR201W 623444 623444 Deletion C
A single nucleotide deletion was made in the intergenic region between ORFs YBR200W-A and DER1/YBR201W.
New    623434  GAAGGTATAACAAAA-CAGATAGACACCTAATAAAGAACAAAATATTCCTATAGTTTTGC  623492
               ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Old    623429  GAAGGTATAACAAAACCAGATAGACACCTAATAAAGAACAAAATATTCCTATAGTTTTGC  623488

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL001C, YBL002W 237021 237021 Insertion G
A single nucleotide insertion was made in the intergenic region between ORFs HTB2/YBL002W and ECM15/YBL001C.
New    236992  AGGGTCTAGTCTATCAGCCTCCGAAGGGAGTTGTATAAATGTATATATATAACTTTATAA  237051
               ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Old    236995  AGGGTCTAGTCTATCAGCCTCCGAAGG-AGTTGTATAAATGTATATATATAACTTTATAA  237053

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS208, CEN2 238133 238133 Substitution G A
238116 238116 Substitution G A
Two separate single nucleotide substitutions were made in the intergenic region between ARS208 and CEN2.
New    238082  AGTACTTGCTTTCAGCAGAAAATGAAAAAAAGAACGTTCAAACAGACTGAAAATATAGCT  238141
               |||||||||||||||||||||||||||||||| |||||||||||||||| ||||||||||
Old    238084  AGTACTTGCTTTCAGCAGAAAATGAAAAAAAGGACGTTCAAACAGACTGGAAATATAGCT  238143

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL079W, YBL080C 75208 75208 Substitution A G
A single nucleotide substitution was made in the intergenic region between ORFs PET112/YBL080C and NUP170/YBL079W.
New    75178   GGAGAATTACTGGAACCTAGGATCTGACAAGCGGACAAAAAAGCAGAGTGCGTTTATTAC  75237
               ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Old    75175   GGAGAATTACTGGAACCTAGGATCTGACAAGCGAACAAAAAAGCAGAGTGCGTTTATTAC  75234

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL077W, YBL078C 80747 80747 Deletion T
A single nucleotide deletion was made in the intergenic region between ORFs ATG8/YBL078C and YBL077W.
New    80708   TTCAGACTTAAATGTAGACTTCATGTCTCTAGTAATTATTTT-ATTATGATTTTCTCAAC  80766
               |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Old    80705   TTCAGACTTAAATGTAGACTTCATGTCTCTAGTAATTATTTTTATTATGATTTTCTCAAC  80764

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL072C 89277 89277 Substitution G T
A single nucleotide substitution was made within the 5' UTR intron of ORF RPS8A/YBL072C.
New    89267   GGCTTGATTTTTTGGGTACACAAAGGATTCAGTTTAGTGCACTGCTCCTGTCACAATTTA  89326
               |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Old    89265   GGCTTGATTTTTGGGGTACACAAAGGATTCAGTTTAGTGCACTGCTCCTGTCACAATTTA  89324

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL067C, YBL068W 93622 93622 Deletion C
A single nucleotide deletion was made in the intergenic region between ORFs PRS4/YBL068W and UBP13/YBL067C.
New    93594   AAAGGAGACGGTGAACCTTTACCTTCC-TTGATATGCAAATATTTTTCAGCTTTTCCTAA  93652
               ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Old    93595   AAAGGAGACGGTGAACCTTTACCTTCCCTTGATATGCAAATATTTTTCAGCTTTTCCTAA  93654

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR077C, YBR078W 392822 392822 Insertion T
392568 392569 Substitution CG GC
392557 392558 Substitution CG GC
392340 392340 Deletion TT
Several nucleotide changes were made in the intergenic region between ORFs SLM4/YBR077C and ECM33/YBR078W.
New    392327  GATAACTGCCTTTTTTTTTT--CTTCTTATCTTCCCTTAATTAATTCATTAGAGTCTTTT  392384
               ||||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||
Old    392321  GATAACTGCCTTTTTTTTTTTTCTTCTTATCTTCCCTTAATTAATTCATTAGAGTCTTTT  392380
New    392545  CACGACCCGGGTGGCTGCTGCGCCCTCGCGAAAAAGAAATGAAATGGAGTGCAAAAACGG  392604
               ||||||||||||||||  |||||||||  |||||||||||||||||||||||||||||||
Old    392541  CACGACCCGGGTGGCTCGTGCGCCCTCCGGAAAAAGAAATGAAATGGAGTGCAAAAACGG  392600
New    392805  AATGTCAAACACCTACGACTTTTCGCAATCAACGGACCTCTCTTGCATTTTTGTATTTAA  392864
               |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Old    392801  AATGTCAAACACCTACGACTTT-CGCAATCAACGGACCTCTCTTGCATTTTTGTATTTAA  392859

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR072C-A, YBR072W 382742 382742 Insertion G
382729 382729 Insertion G
Two separate single nucleotide insertions were made in the intergenic region between ORFs HSP26/YBR072W and YBR072C-A.
New    382719  TTGCTTGCATATGGGCTTGAAACATATGGTCATCACATCTGAGCGATTTTACCTCTTAGA  382778
               |||||||||||||| ||||||||||||| |||||||||||||||||||||||||||||||
Old    382716  TTGCTTGCATATGG-CTTGAAACATATG-TCATCACATCTGAGCGATTTTACCTCTTAGA  382773

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR066C, YBR067C 371424 371424 Insertion A
370774 370773 Substitution C T
A single nucleotide substitution and a single nucleotide insertion were made in the intergenic region between ORFs NRG2/YBR066C and TIP1/YBR067C.
New    370729  TTGTTCTTCGAACAGTAGCGAGTGCTCATATGACTTGGTGCCGGAAATTCATTTGAGCTG  370788
               ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Old    370727  TTGTTCTTCGAACAGTAGCGAGTGCTCATATGACTTGGTGCCGGAAACTCATTTGAGCTG  370786
New    371389  AAGGTTATAGTCTCCTTTTTTTCTTGGCTTCGGGAAAAATACGATTTGTTTGTTATTCTA  371448
               |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Old    371387  AAGGTTATAGTCTCCTTTTTTTCTTGGCTTCGGGAAAA-TACGATTTGTTTGTTATTCTA  371445

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS230, YBL100W-C 28909 28909 Insertion A
28887 28887 Insertion AT
A dinucleotide insertion and a mononucleotide insertion were made in the intergenic region between ORF YBL100W-C and ARS230.
New    28859   ATTACTGTTTCGGGAATATAACGTTTGATATCGCTAGCGCACCCAGATGAGAAATCCGCA  28918
               |||||||||||||||||||||||||||||  |||||||||||||||||||||| ||||||
Old    28859   ATTACTGTTTCGGGAATATAACGTTTGAT--CGCTAGCGCACCCAGATGAGAA-TCCGCA  28915

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS228 792273 792273 Insertion T
A single nucleotide insertion was made within ARS228.
New    792231  TTTGTTATGAATCTGAAAAGAAAAATACTATTTTAGCAATACAATGAATTTTAAAAAGTT  792290
               |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Old    792226  TTTGTTATGAATCTGAAAAGAAAAATACTATTTTAGCAATACAATGAA-TTTAAAAAGTT  792284

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS225, YBR275C 757291 757291 Deletion A
A single nucleotide deletion was made in the intergenic region between ORF RIF1/YBR275C and ARS225.
New    757242  ATCTTCTTGCTAACGATGAGTCGCCAATAAATAAAAAATCGACG-CGTCGGTCAATTATA  757310
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    757237  ATCTTCTTGCTAACGATGAGTCGCCAATAAATAAAAAATCGACGACGTCGGTCAATTATA  757306

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 ARS208 237892 237892 Substitution G A
237839 237839 Substitution G A
Two separate single nucleotide substitutions were made within ARS208.
New    237832  TTGCGAAAATTATTCTTTAATAGTTTAACTAAAAGTAAAAAGTTAGAAATCATAAATAAA  237891
               ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| |
Old    237834  TTGCGGAAATTATTCTTTAATAGTTTAACTAAAAGTAAAAAGTTAGAAATCATAAATAGA  237893

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL103C, YBL104C 21376 21376 Insertion A
A single nucleotide insertion was made in the intergenic region between ORFs YBL104C and RTG3/YBL103C.
New    21361   CTTATGCTATCTTGAAATATATCATCGCCGTAAAGTATGATGTGTAGCGCATTAGTCTTC  21420
               |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Old    21361   CTTATGCTATCTTGAA-TATATCATCGCCGTAAAGTATGATGTGTAGCGCATTAGTCTTC  21419

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL102W, YBL103C 28913 28913 Substitution C A
23855 23856 Deletion CC
23947 23947 Insertion A
Several sequence changes were made in the intergenic region between ORFs RTG3/YBL103C and SFT2/YBL102W.
New    23821   GAAGGCTTTTCTAATCACCATGGCTTTATTATTTC--AAAAGTAACTTGCGAAGAGTCAC  23878
               |||||||||||||||||||||||||||||||||||  |||||||||||||||||||||||
Old    23820   GAAGGCTTTTCTAATCACCATGGCTTTATTATTTCCCAAAAGTAACTTGCGAAGAGTCAC  23879
New    23879   ATCCCGCGGAACGGCCCGCAATCGTGACCCGGCAAAAGGCGATTGTAATGAAGAGGGAGT  23938
               ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Old    23880   ATCCCGCGGAACGGCCCGCAATCGTGACCCGGCCAAAGGCGATTGTAATGAAGAGGGAGT  23939
New    23939   ATTGGTCAAGACTTGTACTATACTGAAATAGGAAGAAGATTGAATAAATTTGCATTCTAA  23998
               |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Old    23940   ATTGGTCA-GACTTGTACTATACTGAAATAGGAAGAAGATTGAATAAATTTGCATTCTAA  23998

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR125C, YBR126C 488600 488601 Substitution TC AT
A dinucleotide substitution was made in the intergenic region between ORFs PTC4/YBR125C and TPS1/YBR126C.
New    488565  CGTTATGCGGTGTGAACAGCGACAATAAAAAAAAATGTGGGATAAATTATGGCTTTTTTT  488624
               |||||||||||||||||||||||||||||||||||||||||  |||||||||||||||||
Old    488559  CGTTATGCGGTGTGAACAGCGACAATAAAAAAAAATGTGGGTCAAATTATGGCTTTTTTT  488618

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR102C, YBR103W 447535 447536 Substitution CG GC
A dinucleotide substitution was made in the intergenic region between ORFs EXO84/YBR102C and SIF2/YBR103W.
New    447525  AAAGGTTATGAGATATGCAAGACCATTCGTTTTGATTTGCAATTAGTGAGAACAATTTAA  447584
               ||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||
Old    447519  AAAGGTTATGAGATATCGAAGACCATTCGTTTTGATTTGCAATTAGTGAGAACAATTTAA  447578

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR013C, YBRCdelta14 265922 265922 Deletion C
265905 265905 Substitution T G
265902 265902 Deletion C
Several nucleotide changes were made within the intergenic region between ORF YBR013C and Ty1 LTR YBRCdelta14.
New    265852  GATACATATCCTGAATAAGGGATATATCATTATGAGGTTAAGTGGCCTAAAA-ACGCAAT  265910
               |||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||
Old    265850  GATACATATCCTGAATAAGGGATATATCATTATGAGGTTAAGTGGCCTAAAACACTCAAT  265909
New    265911  TAATACGGATCC-TTGTACTATTAAGTCTTTTCTATCTCTGAAAATTAACTTAAGAAGCG  265969
               |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Old    265910  TAATACGGATCCCTTGTACTATTAAGTCTTTTCTATCTCTGAAAATTAACTTAAGAAGCG  265969

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR295W, YBR296C 796707 796707 Substitution A G
A single nucleotide substitution was made in the intergenic region between ORFs PCA1/YBR295W and PHO89/YBR296C.
New    796671  TAAATTAGAAAAAAATTAATGCATCTTTAAGGTTTTAAATTAGAAATGTTTTAACTTTAA  796730
               |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Old    796665  TAAATTAGAAAAAAATTAATGCATCTTTAAGGTTTTAAATTAAAAATGTTTTAACTTTAA  796724

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR292C, YBR293W 786761 786761 Insertion A
786736 786737 Substitution CT TC
Several nucleotide changes were made in the intergenic region between ORFs YBR292C and YBR293W.
New    786721  TTCCAAATCAGATTTTTTTTCGCAATGCTTAAATCTAGTAAACACAAAGTACTACCGAAA  786780
               |||||||||||||||||||  |||||||||||||||||||||||| ||||||||||||||
Old    786717  TTCCAAATCAGATTTTTTTCTGCAATGCTTAAATCTAGTAAACAC-AAGTACTACCGAAA  786776
New    786761  AACACAAAGTACTACCGAAAAGCAAGGATGGAAACTATGGCAGTATTGAAGAGACTGAAA  786820
               ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Old    786757  AACAC-AAGTACTACCGAAAAGCAAGGATGGAAACTATGGCAGTATTGAAGAGACTGAAA  786815

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL098W, YBL099W 38920 38920 Substitution C A
38917 38917 Substitution C T
38800 38800 Substitution C A
38728 38728 Substitution C A
Several single nucleotide substitutions were made in the intergenic region between ORFs ATP1/YBL099W and BNA4/YBL098W.
New    38699   AAAAAAATAAAAATGAATATAAGGTACGTCTCAAAAAGAAATGTAAATATAGAAATTTTA  38758
               |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Old    38696   AAAAAAATAAAAATGAATATAAGGTACGTCTCCAAAAGAAATGTAAATATAGAAATTTTA  38755
New    38759   AAAAAAAAAACGAAAAAAAACATAACTAAATTTAAAGTGCAGCCAAACAATAACCCTGAA  38818
               |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Old    38756   AAAAAAAAAACGAAAAAAAACATAACTAAATTTAAAGTGCAGCCCAACAATAACCCTGAA  38815
New    38879   GTAAATAATGCCCCTACTTTTCTTCTAAGGAAATGAGTTACTACAAAAATAAGGAAATAT  38938
               |||||||||||||||||||||||||||||||| |||||||| || |||||||||||||||
Old    38876   GTAAATAATGCCCCTACTTTTCTTCTAAGGAAGTGAGTTACCACCAAAATAAGGAAATAT  38935

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL092W, YBL093C 45495 45495 Substitution T A
A single nucleotide substitution was made in the intergenic region between ORFs ROX3/YBL093C and RPL32/YBL092W.
New    45479   ACTGGAGAAGAGTGTTTGAATCCAGCAGAAGGTAATACGCACCTTTCTCATCTATTTGCA  45538
               ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Old    45476   ACTGGAGAAGAGTGTTTGATTCCAGCAGAAGGTAATACGCACCTTTCTCATCTATTTGCA  45535

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL087C, YBL088C 59406 59406 Insertion T
A single nucleotide insertion was made in the intergenic region between ORFs TEL1/YBL088C and RPL23A/YBL087C.
New    59399   ATTTCCCTTTTTCTTTGAAGGCTTTTTTTTCGAATTTCCTGCTTTTTTTGCGAGGCTTTG  59458
               ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Old    59396   ATTTCCCTTTT-CTTTGAAGGCTTTTTTTTCGAATTTCCTGCTTTTTTTGCGAGGCTTTG  59454

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBL086C, YBL087C 61056 61056 Deletion T
A single nucleotide deletion was made in the intergenic region between ORFs RPL23A/YBL087C and YBL086C.
New    61019   AAAAACTTGGTCTGTTGAAAATAATAACTGCATGGGTTTTT-CAAAGCAGTTGGGGGTGT  61077
               ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Old    61015   AAAAACTTGGTCTGTTGAAAATAATAACTGCATGGGTTTTTTCAAAGCAGTTGGGGGTGT  61074

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR205W, YBR207W 634934 634934 Substitution C T
A single nucleotide substitution was made in the intergenic region between ORFs KTR3/YBR205W and FTH1/YBR207W.
New    634903  ATATACACATAATTCAATGTAGTAGCCACCTCACTTTATTCTAGTGCCTTCTTGGGTTCA  634962
               |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Old    634898  ATATACACATAATTCAATGTAGTAGCCACCTCACTTCATTCTAGTGCCTTCTTGGGTTCA  634957

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR038W, YBR039W 315270 315271 Substitution CG GC
315071 315071 Deletion G
A single nucleotide deletion and a dinucleotide substitution were made in the intergenic region between ORFs CHS2/YBR038W and ATP3/YBR039W.
New    315050  TGTATGAGCTGGGCATCAAGAG-CTTTTGAGATTTTCCAAGTAGTAACTCATCTTTCTGA  315108
               |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Old    315049  TGTATGAGCTGGGCATCAAGAGGCTTTTGAGATTTTCCAAGTAGTAACTCATCTTTCTGA  315108
New    315229  TCGATAAAACAAAAAAAAAGTAAGAAGATATATGAATAGGAGCTGTCGCTAGAACTAGTA  315288
               |||||||||||||||||||||||||||||||||||||||||  |||||||||||||||||
Old    315229  TCGATAAAACAAAAAAAAAGTAAGAAGATATATGAATAGGACGTGTCGCTAGAACTAGTA  315288

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR036C, YBR037C 310457 310457 Insertion T
A single nucleotide insertion was made in the intergenic region between ORFs CSG2/YBR036C and SCO1/YBR037C.
New    310430  TCCTTTAGAGTGAGAGAGCTTTTTTTTTTCTTGCGATACACCTTCGCCGGGTGATAGCCG  310489
               |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Old    310430  TCCTTTAGAGTGAGAGAGCTTTTTTTTT-CTTGCGATACACCTTCGCCGGGTGATAGCCG  310488

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2011-02-03 YBR160W, YBR161W 561435 561435 Deletion C
A single nucleotide deletion was made in the intergenic region between ORFs CDC28/YBR160W and CSH1/YBR161W.
New    561405  GCAAATTCATTGCTCTTTGAATTTTGAAGAGTTTCA-TTGTCACCGTTGAATAACCGAGA  561463
               |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Old    561399  GCAAATTCATTGCTCTTTGAATTTTGAAGAGTTTCACTTGTCACCGTTGAATAACCGAGA  561458

Engel SR, et al. (2014) The reference genome sequence of Saccharomyces cerevisiae: then and now. G3 (Bethesda) 4(3):389-98
SGD paper | PubMed | Full-Text

2004-07-16 YBL066C 96812 96962 Substitution GTGGTTGGATAGAGAACAGTGTTAG TCCCGTAGAATCGTGGTCGTTGTTC TATGATATCAACTTTGGAACAACTC AGAGGTGGATATCCCGTCTTTTAGA GGACCGGGGTCGGACGCGGAATCCA ACTGTCATATATTGACCGAAACAAA G GATGGTTTGGAAGTTAGAAGAAGTT ACAGTGTTAGTGCCCGTAGAAAATC GTTGGTTCGTTTTGTTGCTATTGAT ATCATTACTTTTGGAAAACAAGCTC AGAGGTGGATATGCCGTGCTTTTAG AGGAGCCGGGGTCGGAAACGACGGA ATGCAAATCTGTCATATTATTTGAC TTCGAAGCAATCG
SGD re-sequenced this region in S288C and found that 37 nucleotide insertions and 4 nucleotide changes were necessary to correct the reference sequence. As a consequence of these changes, SEF1/YBL066C was extended at the 3' end, altering the C-terminus and increasing the size of the predicted protein from 1,057 to 1,148 amino acids.
New:         1 TGTTTCCAGGAGTCTTCACGTTGTTTTCATTATCGATGGTTTGGAAGTTAGAAGAAGTTA 60 
               ||||||||||||||||||||||||||||||||||| ||||| |||   ||| |||| 
Current: 96777 TGTTTCCAGGAGTCTTCACGTTGTTTTCATTATCG-TGGTT-GGA---TAG-AGAA---- 96826

New:        61 CAGTGTTAGTGCCCGTAGAAAATCGTTGGTTCGTTTTGTTGCTATTGATATCATTACTTT 120
               |||||||||| |||||||||  |||| || |||||  ||| ||| ||||||||  ||||| 
Current: 96827 CAGTGTTAGT-CCCGTAGAA--TCGT-GG-TCGTT--GTT-CTA-TGATATCA--ACTTT 96875

New:       121 TGGAAAACAAGCTCAGAGGTGGATATGCCGTGCTTTTAGAGGAGCCGGGGTCGGAAACGA 180
                ||||  ||| ||||||||||||||| |||| ||||||||||| |||||||||||  ||
Current: 96876 -GGAA--CAA-CTCAGAGGTGGATATCCCGT-CTTTTAGAGGA-CCGGGGTCGGA--CG- 96926

New:       181 CGGAATGCAAATCTGTCATATTATTTGACTTCGAAGCAATCGGTGTACGTGAATGGGACA 240 
               |||||| |||  ||||||||| | |||||  |||| |||  ||||||||||||||||||| 
Current: 96927 CGGAATCCAA--CTGTCATAT-A-TTGAC--CGAAACAAA-GGTGTACGTGAATGGGACA 96979 
2004-07-13 YBL067C 93899 93899 Insertion A
The work of Kellis et al. 2003 predicted the insertion of a single nucleotide; this sequence error was confirmed in S288C by SGD. As a consequence of this sequence change, UBP13/YBL067C was extended at the 3' end, altering the C-terminus and increasing the size of the predicted protein from 688 to 747 amino acids.
New: 93883 TCGCTTTATAAAACAAAACATATGCTGTTGCCATATTTGGAGATTCACCTGTGAATTCTA 93942
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old: 93883 TCGCTTTATAAAACAAA-CATATGCTGTTGCCATATTTGGAGATTCACCTGTGAATTCTA 93941 

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-07-12 YBR062C 366383 366383 Deletion T
The work of Cliften et al. 2003 predicted that there is a sequencing error in YBR062C: an single nucleotide should be deleted 100 nt upstream of the currently annotated start site. Assuming this sequence change, Cliften et al. further propose a new intron and 5' exon, and a framechange for this ORF. When spliced, this ORF would now encode a predicted protein of 180 amino acids. This sequence error was confirmed in S288C by SGD and the coordinates have been changed accordingly (start was moved upstream 195 nt and an intron was added at relative coordinates 17-98).
     New: AAAGTTTTGAAATAGACCTTGCAGTTGGGATCT-GACCTGTCTTCTCTGCTCCTCCTGTG
          ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
     Old: AAAGTTTTGAAATAGACCTTGCAGTTGGGATCTTGACCTGTCTTCTCTGCTCCTCCTGTG 

Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6

2004-07-09 YBR108W 457298 457298 Insertion G
The work of Kellis et al. 2003 predicted the insertion of a single G after the G at chromosomal coordinate 457298. This sequence error was confirmed in strain S288C by SGD. As a consequence of this sequence change which caused a frameshift, YBR108W was extended at the 3' end, altering the C-terminus and increasing the size of the predicted protein from 848 to 947 amino acids.
New: CGGTTCGAAAAAAGTGAAGGACTCTAGCCCTGTTCCCTCAGATCTAGATGAAAAATATGT
     ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Old: CGGTTCGAAAAAAGTGAAG-ACTCTAGCCCTGTTCCCTCAGATCTAGATGAAAAATATGT

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-01-29 YBL097W 40900 40901 Deletion GA
Kellis et al. 2003 predicted and confirmed the deletion of two nucleotides (GA) at chromosomal coordinates 40900-40901. As a consequence of this deletion, YBL097W was extended at the 5' end, altering the N-terminus and increasing the predicted protein from 728 to 754 amino acids.
New  61     TTTACCAATAGA--TCCACCATGATGGCAAATTTTGAAGAATGGATCAAAATGGCTACAG  118
            ||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||||
Old  40888  TTTACCAATAGAGATCCACCATGATGGCAAATTTTGAAGAATGGATCAAAATGGCTACAG  40947

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-01-29 YBL013W 203180 203180 Insertion C
A single C nucleotide insertion was confirmed by sequencing genomic DNA from FY23 (S288C) and a D273-10B related strain; GenBank accession number for FY23 is AY490279. The stop codon of ORF YBL013W has been moved downstream, so that the ORF is now 1206 nucleotides long as opposed to the previously annotated 1182 nt.
New  1141    GGCCAGTTCATGGCGCGCCTGCGGAAAAGATGCGGCGCCCTGAGTGAAAAGTTAGTTTTC  1200
             ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Old  203163  GGCCAGTTCATGGCGCG-CTGCGGAAAAGATGCGGCGCCCTGAGTGAAAAGTTAGTTTTC  203221
2004-01-28 YBL006C, YBL006W-A 216785 216785 Deletion G
Kellis et al. 2003 predicted and confirmed the deletion of a single nucleotide at 216785. As a consequence of this sequence change, YBL006C was extended at the 3' end, altering the C-terminus and increasing the predicted protein from 145 to 180 amino acids. In addition, YBL006W-A was extended at the 3' end, altering the C-terminus and increasing size of the predicted protein from 39 to 49 amino acids.
New 301 TCAAGTGTCGA-CTTTTCGCACCATTTCCACCGCACATTAGAATGCAAAGCTGCTCTAGA  359
        ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Old     TCAAGTGTCGACCTTTTCGCACCATTTCCACCGCACATTAGAATGCAAAGCTGCTCTAGA

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-01-26 YBL103C-A, YBL104C 21279 21279 Insertion T
18364 18364 Insertion G
21288 21288 Insertion C
21345 21345 Insertion A
21347 21347 Insertion A
Brachat et al. 2003 and Kellis et al. 2003 predicted and confirmed DIFFERENT sequence changes for YBL104C. Brachat et al. demonstrated the insertion of a single G nt, which extended the 3' end by 141 nt and altered the C-terminus, resulting in overlapping ORF YBL103C-A becoming part of YBL104C (Cliften et al. also predicted this change).
     New:       CTTCTGTCTGCATTGGATCGCGTGATTGCGTCCCATTTATTACAAAAGGTAAGTTTGACG 
                ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Previous: 18350 CTTCTGTCTGCATTG-ATCGCGTGATTGCGTCCCATTTATTACAAAAGGTAAGTTTGACG 18408

Kellis et al. demonstrated the insertion of four separate nucleotides (a single T, a single C, and two separate As), which extended at the 5' end by 198 nt and altered the N-terminus. The inserted C (G on the opposite, coding strand) is the third nucleotide of the new ATG start codon.

     New:       ATTATCATATGACCAATGGGTCACTTTTTTGATGAGACCCATGTTTATTCTTCTATACGT 
                ||||||||||||||||||||||||||||| ||||||||| ||||||||||||||||||||
Previous: 21251 ATTATCATATGACCAATGGGTCACTTTTT-GATGAGACC-ATGTTTATTCTTCTATACGT 21308
     New:       TCGTGATACTGCACTTACGACTACCAGTAACATCAGAATAACCATAGAGC 
                ||||||||||||||||||||||||||||||||||||| || |||||||||
Previous: 21309 TCGTGATACTGCACTTACGACTACCAGTAACATCAGA-TA-CCATAGAGC 21356

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6

2004-01-21 YBR041W 320081 320082 Deletion CC
Kellis et al. 2003 and Brachat et al. 2003 independently predicted and confirmed the deletion of two C nucleotides from YBR041W. As a consequence of this change, YBR041W was extended at the 3' end, altering the C-terminus and increasing the predicted protein from 623 to 669 amino acids.
     New:        TCTTATGCTATGCCCCTATTTGTTAAATTTGTTGATGAAATTAAAATGACAGATAA--TC
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||
Previous: 320025 TCTTATGCTATGCCCCTATTTGTTAAATTTGTTGATGAAATTAAAATGACAGATAACCTC 320084

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text

2004-01-20 YBR157C 553996 553996 Insertion G
Kellis et al. 2003 predicted and confirmed the insertion of a single G nt after the C at chromosomal coordinate 553996. As a consequence of this sequence change, YBR157C was extended at the 3' end, altering the C-terminus and increasing the size of the predicted protein from 106 to 255 amino acids.
     New:        TATGGAGGAATTTCTCCTCGTTTTCACACCATCCTTGTCTCCAGGGAAAGAGTAGGTCTT
                 ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Previous: 553978 TATGGAGGAATTTCTCCTC-TTTTCACACCATCCTTGTCTCCAGGGAAAGAGTAGGTCTT 554036

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-01-09 YBR269C 742165 742165 Insertion G
742175 742175 Insertion G
Kellis et al. 2003 predicted and confirmed the insertion of G after the G at chromosomal coordinate 742165, and the insertion of another G after the G at 742175. As a consequence of these sequence changes, YBR269C was extended at the 3' end, altering the C-terminus and increasing the size of the predicted protein from 130 to 138 amino acids. This sequence change was incorporated at MIPS prior to SGD, and was verified in strain S288C.
     New:        ACGAATAATCGCCGTGTCTCAACGGGTCCTGCTTGGGACCCCCAACTTCACCAGTCTTGG
                 ||||||||||||||||||||||||| |||||||||| |||||||||||||||||||||||
Previous: 742141 ACGAATAATCGCCGTGTCTCAACGG-TCCTGCTTGG-ACCCCCAACTTCACCAGTCTTGG

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2003-09-29 YBR074W, YBR075W 387625 387625 Deletion G
387430 387430 Deletion C
Due to deletion of a C after the C at position 387430 and a deletion of G after the G at position 387625, YBR074W and YBR075W were merged. After merging YBR074W (386243 - 387484 (1-1242)) and YBR075W (387793 - 389175 (1-1383)), the coordinates of the merged ORF, YBR074W, are 386243 - 389173 (1 - 2931). YBR075W is now an alias of YBR074W. These sequence changes were verified in S288c strain by SGD.
Query:   1141 TCTCGTGATAGAATGACTTGGAAATCTTATTCATGGCTATCGTGGAC-ACGCTTTCCTCT 1199
              ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 387383 TCTCGTGATAGAATGACTTGGAAATCTTATTCATGGCTATCGTGGACCACGCTTTCCTCT 387442
Query:   1380 AAG-CCTATCAATTATCGAATTGTTCATTATTTTATGGACCATTTTACTTTTTACGTCGA 1438
              ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 387623 AAGGCCTATCAATTATCGAATTGTTCATTATTTTATGGACCATTTTACTTTTTACGTCGA 387682

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text

2003-01-03 YBR098W, YBR100W 442868 442868 Deletion C
Due to a change to the systematic sequence of chromosome II (C deletion at 442868), YBR098W and YBR100W have been merged to one single ORF of 691 aa. MMS4 is the standard name for the new, elongated ORF after merging; YBR100W and SLX2 are its aliases. The new coordinates of MMS4/YBR098W are 441473-443548, for a coding sequence of 2076 nt.

We thank Jim Brown (james.brown@stanford.edu), and Kirk Ehmsen (ktehmsen@ucdavis.edu) for reporting this sequence error on Chr II, which was verified in the FY1679 (S288c derivative) strain background by SGD.

Old: 442861 AGAAAACCGTTTTGATTCTATATTATGATGCGCAAGAATTTTTTGAACAATACACTTCAC 442920
            ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
New: 442861 AGAAAAC-GTTTTGATTCTATATTATGATGCGCAAGAATTTTTTGAACAATACACTTCAC 442919

Xiao W, et al. (1998) Mms4, a putative transcriptional (co)activator, protects Saccharomyces cerevisiae cells from endogenous and environmental DNA damage. Mol Gen Genet 257(6):614-23
SGD paper | [PubMed https://www.ncbi.nlm.nih.gov/pubmed/9604884] | Full-Text
Kaliraman V, et al. (2001) Functional overlap between Sgs1-Top3 and the Mms4-Mus81 endonuclease. Genes Dev 15(20):2730-40
SGD paper | PubMed | Full-Text
Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text

2003-01-02 YBR086C 422272 422273 Substitution TA AT
We received a direct notification from MIPS about the following sequence changes; we did not have this change in SGD, so the sequence was edited: The T at 422272 was changed to an A, and the A at 422273 was changed to a T. These differences changed amino acid residue 243 of IST2/YBR086C from Tyr (TAC) -> Ile (ATC). The coordinates of YBR086C are not changed due to this sequence update. References: (1) Sequence verification in FY1679 (S288c derivative strain) background by SGD, (2) Personal communication from Anna Kurlandzka (ania218@poczta.ibb.waw.pl).
Old: 422221 GTAGGCAAAAAAGACAAGATGGAAATCATTGGGCCGTTATAAATTTGCTTGTAGAAAATT 422280
            |||||||||||||||||||||||||||||||||||||||||||||||||||  |||||||
New: 422221 GTAGGCAAAAAAGACAAGATGGAAATCATTGGGCCGTTATAAATTTGCTTGATGAAAATT 422280
2001-05-29 YBL069W 91711 91711 Deletion C
A change was made to the systematic sequence of Chromosome II within the ORF AST1/YBL069W. The C at chromosomal coordinate 91711 was deleted, shifting the reading frame and moving the stop from 91722 to 92025:
Old: 91681 TTGATTCACGGCGGTGGTGCGTACGTAACCCACTGTAGGTGATTACGTTGCCAATTATAA 91740
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
New: 91681 TTGATTCACGGCGGTGGTGCGTACGTAACC-ACTGTAGGTGATTACGTTGCCAATTATAA 91739
2001-05-29 YBL004W 234918 234918 Substitution C A
A change was made to the systematic sequence of Chromosome II within the ORF UTP20/YBL004W. The C at chromosomal coordinate 234918 was changed to an A:
Old: 234901 CAGACCGTATTAGAAAGCAGAAAGGAAAGGAGATCTAAAAGGGCAATTCTGGCTGTTAAC 234960
            ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
New: 234901 CAGACCGTATTAGAAAGAAGAAAGGAAAGGAGATCTAAAAGGGCAATTCTGGCTGTTAAC 234960
1999-04-26 YBR266C, YBR267W 739912 739912 Deletion A
739866 739866 Deletion G
Two changes were made to the systematic sequence of Chromosome II within the ORF REI1/YBR267W. The G at chromosomal coordinate 739866 was deleted, and the A at 739912 was deleted; as a result, the start of YBR267W was moved 294 nt upstream.

Note that the deletion at 739912 also affects the overlapping ORF SLM6/YBR266C; as a result, the stop of YBR266C was moved 111 nt upstream:

Old: 739860 GAGCAGGCGGGCCCACATGAAGTCCGATTGGCATCGCTACAATTTGAAAAGAACGTGTTG 739919
            |||||| ||||||||||||||||||||||||||||||||||||||||||||| |||||||
New: 739860 GAGCAG-CGGGCCCACATGAAGTCCGATTGGCATCGCTACAATTTGAAAAGA-CGTGTTG 739917
1999-04-26 YBR201W 623651 623651 Deletion A
A change was made to the systematic sequence of Chromosome II in the region upstream of the ORF DER1/YBR201W. The A at chromosomal coordinate 623651 was deleted. As a result, the start of YBR201W was moved upstream 210 nucleotides, increasing the size of the predicted protein from 141 to 211 amino acids.
Old: 623640 GATCCAGGGAAAGGTAGTGTACAGTTATGATTTAGTATTCAAAAAGGGACAATATGGAAG 623699
            ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
New: 623640 GATCCAGGGAA-GGTAGTGTACAGTTATGATTTAGTATTCAAAAAGGGACAATATGGAAG 623698
1999-04-26 YBR294W 791709 791709 Substitution T C
A change was made to the systematic sequence of Chromosome II within the ORF SUL1/YBR294W. The T at chromosomal coordinate 791709 was changed to a C:
Old: 791700 TATGTGCTGTAACTGGGACAAATTTACCGTTTTTTCATATCGATATACCCGATTTTTCTA 791759
            ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
New: 791700 TATGTGCTGCAACTGGGACAAATTTACCGTTTTTTCATATCGATATACCCGATTTTTCTA 791759
1999-04-26 YBR069C, YBR070C 378824 378824 Insertion C
378810 378810 Insertion T
378815 378815 Deletion C
Three changes were made to the systematic sequence of Chromosome II in the intergenic region between the ORFs TAT1/YBR069C and ALG14/YBR070C. A single T was inserted after the T at chromosomal coordinate 378810, the C at 378815 was deleted, and a C was inserted after the G at 378824:
Old: 378781 GCCGGCCCTGACTGACCTTTTTTGTATTTT-GGCCCGTCCCGGCG-GGCGAAGAGTGAGAC 378839
            |||||||||||||||||||||||||||||| |||| ||||||||| |||||||||||||||
New: 378781 GCCGGCCCTGACTGACCTTTTTTGTATTTTTGGCC-GTCCCGGCGCGGCGAAGAGTGAGAC 378840
1999-04-23 YBL067C 94040 94040 Substitution G C
A change was made to the systematic sequence of Chromosome II within the ORF UBP13/YBL067C. The G at chromosomal coordinate 94040 was changed to a C:
Old: 94021 CATAATGGCCGTGTTGTGGGCCACCGCCCATATGAACGACAATCCCAGCCAATTCATACT 94080
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
New: 94021 CATAATGGCCGTGTTGTGGCCCACCGCCCATATGAACGACAATCCCAGCCAATTCATACT 94080
1999-04-23 YBR006W 247367 247367 Substitution C T
248539 248539 Substitution A T
248278 248278 Substitution A T
247262 247262 Substitution C G
Three single nucleotide (nt) substitutions were made to the systematic sequence of Chromosome II within the ORF UGA2/YBR006W, and one substitution was made in the adjacent intergenic region. The C at chromosomal coordinate 247262 was changed to a G, the C at 247367 was changed to a T, the A at 248278 was changed to a T (destroying the stop codon), and the A at 248539 was changed to a T. As a result, the stop was moved 186 nucleotides downstream, increasing the size of the coding sequence from 1308 nt to 1494 nt.
Old: 247261 TCGCAACCATCATTACTTTAGAAAATGGTAAAGCTCTAGGGGAAGCTAAAGGAGAAATCA 247320
            | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
New: 247261 TGGCAACCATCATTACTTTAGAAAATGGTAAAGCTCTAGGGGAAGCTAAAGGAGAAATCA 247320
Old: 247321 AATACGCGGCTTCGTATTTTGAGTGGTACGCCGAGGAAGCACCCCGCTTATATGGTGCTA 247380
            |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
New: 247321 AATACGCGGCTTCGTATTTTGAGTGGTACGCCGAGGAAGCACCCCGTTTATATGGTGCTA 247380
Old: 248221 CTAATGATACTGAGTTTGGTTTAGCAGCATATGTCTTTTCTAAAAATGTCAACACTTAAT 248280
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
New: 248221 CTAATGATACTGAGTTTGGTTTAGCAGCATATGTCTTTTCTAAAAATGTCAACACTTTAT 248280
Old: 248521 GTATATATCTATTGCATGAATAAATACTCTACTCCTCGTATATAGAAAGTTAAGTAAATT 248580
            |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
New: 248521 GTATATATCTATTGCATGTATAAATACTCTACTCCTCGTATATAGAAAGTTAAGTAAATT 248580
1999-04-23 YBL066C 97484 97485 Substitution TG GC
A change was made to the systematic sequence of Chromosome II within the ORF SEF1/YBL066C. The two nucleotides TG at positions 575 and 576 (chromosomal coordinates 97484-97485) were changed to GC, altering translation by changing amino acid 192 from Gln (CAA) to Ala (GCA). Note that this ORF is on the Crick strand.
Old: 97441 AGAACCGTCAGAATCTCCGTTATTTGTCTTGGCTAGCTTTTCTTGCTGCTTTAAGGCATT 97500
           |||||||||||||||||||||||||||||||||||||||||||  |||||||||||||||
New: 97441 AGAACCGTCAGAATCTCCGTTATTTGTCTTGGCTAGCTTTTCTGCCTGCTTTAAGGCATT 97500

Cherry JM, et al. (1998) "Genetic and Physical Maps of Saccharomyces cerevisiae (Edition 15)". Pp. 414-420 in 1998 Yeast Genetics and Molecular Biology Meeting Program and Abstracts. Bethesda, MD: The Genetics Society of America
SGD paper

1999-04-22 YBL033C 159114 159114 Substitution C G
The C at chromosomal coordinate 159114 within the ORF RIB1/YBL033C was changed to a G, altering translation by changing amino acid 181 from Lys (AAG) to Asn (AAC). Note that this ORF is on the Crick strand:
Old: 159061 CGACCCTCTTGTCTTAGATACACGATAACACCATGGCCGTTTCCACCTTTGATCTTGCTT 159120
            ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
New: 159061 CGACCCTCTTGTCTTAGATACACGATAACACCATGGCCGTTTCCACCTTTGATGTTGCTT 159120

Cherry JM, et al. (1998) "Genetic and Physical Maps of Saccharomyces cerevisiae (Edition 15)". Pp. 414-420 in 1998 Yeast Genetics and Molecular Biology Meeting Program and Abstracts. Bethesda, MD: The Genetics Society of America
SGD paper

1998-09-13 YBL101C 25408 25408 Insertion C
28272 28272 Insertion G
28296 28296 Insertion C
25394 25394 Deletion T
28306 28306 Substitution A G
28302 28302 Insertion GG
Six changes were made to the systematic sequence of Chromosome II within the ORF ECM21/YBL101C and in the adjacent intergenic region. Within the ORF, the T at chromosomal coordinate 25394 was deleted, and a single C was inserted after the C at 25408:
Old: 25381 CGGCATCATCGCTTGTATCCGGATGGCC-ACTAACTGACGTAGTTCTTGATAAGTTCAAT 25439
           ||||||||||||| |||||||||||||| |||||||||||||||||||||||||||||||
New: 25381 CGGCATCATCGCT-GTATCCGGATGGCCCACTAACTGACGTAGTTCTTGATAAGTTCAAT 25439

Upstream of the ORF, a single G was inserted after the G at 28272, a single C was inserted after the C at 28296, two nucleotides (nt) GG were inserted after the G at 28302, and the A at 28306 was changed to a G:

Old: 28260 TTTTTCGCCACCG-TCTTGATGTTATAAACGGCATGCC-AATAGG--TAGAGAAAAATCT 28315
           ||||||||||||| |||||||||||||||||||||||| ||||||  ||| |||||||||
New: 28260 TTTTTCGCCACCGGTCTTGATGTTATAAACGGCATGCCCAATAGGGGTAGGGAAAAATCT 28319

The start site of YBL101C was then moved upstream, extending the size of the coding region from 3234 nt to 3354 nt, and the size of the predicted protein from 728 amino acids (aa) to 754 aa.

1997-07-27 YBL091C 48615 48615 Substitution A C
The A at chromosomal coordinate 48615 (upstream of the Crick strand ORF MAP2/YBL091C at coordinates 48402-47353) was changed to a C, and the start site of YBL091C was then moved 216 nucleotides (nt) upstream to the newly-created start codon, extending the size of the coding sequence from 1050 nt to 1266 nt, the size of the predicted protein from 349 amino acids (aa) to 421 aa. Note that the sequence presented below is from the Watson strand:
New: 48600 TATTTCAGCGTCTGTCATTTTTCAATACGGTAGAGCTTCTACAGTACTTGTTGATGTAAA 48659
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Old: 48600 TATTTCAGCGTCTGTAATTTTTCAATACGGTAGAGCTTCTACAGTACTTGTTGATGTAAA 48659
1997-07-27 YBL103C 22603 22603 Insertion G
A single G was inserted after the G at chromosomal coordinate 22603 within the ORF RTG3/YBL103C, shifting the frame and extending the 3' end by 510 nucleotides:
New: 22561 TACCTAGGTCATCGTAATTCAATAAAGATGGTGGAACCAACTGGCCGAGTTCTTTTATCT 22620
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Old: 22561 TACCTAGGTCATCGTAATTCAATAAAGATGGTGGAACCAACTG-CCGAGTTCTTTTATCT 22619

Annotation Changes without sequence changes

Date Affected Features
2014-11-18 TLC1

The feature_type annotation of TLC1 was changed from ncRNA to telomerase_RNA_gene (SO:0001643) as part of SGD's genome annotation revision R64.2.

2014-11-18 ARS207, ARS208, ARS209, ARS211, ARS214, ARS216, ARS217, ARS224, ARS231

As part of SGD's genome annotation revision R64.2, new ARS consensus sequences were annotated within the following ARS elements on Chromosome II based on Liachko et al. 2013: ARS207, ARS231, ARS208, ARS209, ARS211, ARS214, ARS216, ARS217, ARS224.

Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704.
SGD paper | PubMed | Full-Text

2014-11-18 ARS202, ARS207, ARS208, ARS209, ARS214, ARS224, ARS228, ARS231

The chromosomal coordinates of the following ARS elements on Chromosome II were updated based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: ARS202, ARS207, ARS231, ARS208, ARS209, ARS214, ARS224, ARS228.

Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704.
SGD paper | PubMed | Full-Text

2014-11-18 ARS200, ARS201, ARS203, ARS206, ARS217

The following new ARS elements on Chromosome II were added to the genome annotation based on Liachko et al. 2013 as part of SGD's genome annotation revision R64.2: ARS200, ARS201, ARS203, ARS206, ARS217.

Liachko I, et al. (2013) High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast. Genome Res 23(4):698-704.
SGD paper | PubMed | Full-Text

2014-11-18 ETC8

The following previously unmapped features were identified as nuclear matrix attachment sites and assigned chromosomal coordinates based on Hiraga et al. 2012 as part of SGD's genome annotation revision R64.2: ETC1, ETC2, ETC3, ETC4, ETC6, ETC7, ETC8.

Hiraga SI, et al. (2012) TFIIIC localizes budding yeast ETC sites to the nuclear periphery. Mol Biol Cell 23(14):2741-54
SGD paper | PubMed | Full-Text

2009-05-07 YBR073W

The start site for RDH54/YBR073W was reinstated 102 nt (34 codons) upstream. This is a reversal of the start site change made to this ORF on 2003-09-22. Thank you to Nancy Hollingsworth for bringing this issue to our attention.

Shinohara M, et al. (1997) Characterization of the roles of the Saccharomyces cerevisiae RAD54 gene and a homologue of RAD54, RDH54/TID1, in mitosis and meiosis. Genetics 147(4):1545-56
SGD paper | PubMed | Full-Text
Petukhova G, et al. (2000) Promotion of Rad51-dependent D-loop formation by yeast recombination factor Rdh54/Tid1. Genes Dev 14(17):2206-15
SGD paper | PubMed | Full-Text
Chi P, et al. (2006) Yeast recombination factor Rdh54 functionally interacts with the Rad51 recombinase and catalyzes Rad51 removal from DNA. J Biol Chem 281(36):26268-79
SGD paper | Pubmed | Full-Text Kwon Y, et al. (2008) ATP-dependent Chromatin Remodeling by the Saccharomyces cerevisiae Homologous Recombination Factor Rdh54. J Biol Chem 283(16):10445-52
SGD paper | Pubmed | Full-Text

2009-05-07 ARS212, ARS213, ARS221

The following ARS elements on Chromosome 2 were added to the genome annotation based on Raveendranathan et al. 2006: ARS212, ARS213, and ARS221.

Raveendranathan M, et al. (2006) Genome-wide replication profiles of S-phase checkpoint mutants reveal fragile sites in yeast. EMBO J 25(15):3627-39
SGD paper | PubMed | Full-Text

2007-07-09 YBR215W

The start of ORF HPC2/YBR215W was moved 90 nt upstream and an intron was added at relative coordinates 14..97 based on GenBank EF123149 and Juneau et al. 2007. According to Juneau et al. 2007, the intron is "inefficiently spliced" (splicing rate 85%). The ORF had been annotated as 1872 nt long, but is now 1962 nt in length.

Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
SGD paper | PubMed | Full-Text | YFGdb

2007-04-05 YBLCdelta7, YBRCdelta11, YBRCdelta14, YBRCdelta19

The following Ty1 LTRs on Chromosome II were mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick); the error has now been corrected, so that the LTRs are annotated on the Crick strand: YBLCdelta7, YBRCdelta11, YBRCdelta14, YBRCdelta19.

2007-04-05 YBRCtau2

YBRWtau2, a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name YBRCtau2 and is annotated on the Crick strand. The name YBRWtau2 is being retained as an alias.

2007-04-05 YBLCtau1

YBLWtau1, a Ty4 LTR on Chromosome II, was mistakenly annotated on the wrong strand (i.e., on Watson instead of Crick). Both the orientation and the feature name have been corrected, so that the LTR now has the systematic name YBLCtau1 and is annotated on the Crick strand. The name YBLWtau1 is being retained as an alias.

2007-04-04 YBR089C-A

NHP6B/YBR089C-A mRNA contains an intron in the 5' untranslated region (UTR).

Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
SGD papers | PubMed | Full-Text | Web Supplement | YFGdb
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
SGD paper | PubMed | Full-Text | YFGdb

2007-04-04 YBL092W

RPL32/YBL092W mRNA contains an intron in the 5' untranslated region (UTR).

Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement
Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
SGD papers | PubMed | Full-Text | Web Supplement | YFGdb
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
SGD paper | PubMed | Full-Text | YFGdb

2007-04-04 YBL072C

RPS8A/YBL072C mRNA contains an intron in the 5' untranslated region (UTR).

Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement
Miura F, et al. (2006) A large-scale full-length cDNA analysis to explore the budding yeast transcriptome. Proc Natl Acad Sci U S A 103(47):17846-51
SGD papers | PubMed | Full-Text | Web Supplement | YFGdb
Juneau K, et al. (2007) High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A 104(5):1522-7
SGD paper | PubMed | Full-Text | YFGdb

2006-10-04 LSR1

The start site and the stop site for LSR1/snR20 (aka U2 snRNA) were each moved 4 nt upstream, to the positions determined by Ares M. Jr. (1986). Thanks to Wayne Decatur for bringing this update to our attention.

Ares M Jr (1986) U2 RNA from yeast is unexpectedly large and contains homology to vertebrate U4, U5, and U6 small nuclear RNAs. Cell 47(1):49-59
SGD paper | PubMed | Full-Text

2006-10-02 ARS230, ARS231

ARS230 (also known as ARS201.5) and ARS231 (also known as ARS207.5) were added to the genome annotation based on Nieduszynski et al. 2006.

Nieduszynski CA, et al. (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9
SGD papers | PubMed Entry | Full-Text | Web Supplement

2006-09-07 ARS202, ARS207, ARS208, ARS211, ARS214, ARS215, ARS216, ARS220, ARS222, ARS224, ARS225, ARS228

The following ARS elements on Chromosome II were added to SGD based on Nieduszynski et al. 2006: ARS202, ARS207, ARS208, ARS211, ARS214, ARS215, ARS216, ARS220, ARS222, ARS224, ARS225, ARS228.

Nieduszynski CA, et al. (2006) Genome-wide identification of replication origins in yeast by comparative genomics. Genes Dev 20(14):1874-9
SGD papers | PubMed Entry | Full-Text | Web Supplement

2006-03-02 ARS209

This new ARS element ARS209 was added to the genome annotation based on Bouton & Smith 1986 and Wyrick et al. 2001.

Wyrick JJ, et al. (2001) Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins. Science 294(5550):2357-60
SGD paper | PubMed | Full-Text | YFGdb | Comments & Errata
Bouton AH and Smith MM (1986) Fine-structure analysis of the DNA sequence requirements for autonomous replication of Saccharomyces cerevisiae plasmids. Mol Cell Biol 6(7):2354-63
SGD paper | PubMed | Full-Text

2005-11-10 snR161

New snoRNA, snR161, added based on the work of Olivas et al. 1997 and Schattner et al. 2004. Note that Olivas et al. refer to this snoRNA as RNA161.

Olivas WM, et al. (1997) Analysis of the yeast genome: identification of new non-coding and small ORF-containing RNAs. Nucleic Acids Res 25(22):4619-25
SGD paper | PubMed | Full-Text
Schattner P, et al. (2004) Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome. Nucleic Acids Res 32(14):4281-96
SGD paper | PubMed | Full-Text

2005-11-08 YBR056C-B, YBR201C-A

Based on comparisons of the genome sequences of six Saccharomyces species, Cliften et al. 2003 suggested that two new ORFs, YBR056C-B and YBR201C-A, be added to the S. cerevisiae genome annotation.

Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2005-11-07 YBR286W

After consultation with MIPS, SGD will incorporate the annotation change suggested by Kellis et al. 2003 for APE3/YBR286W. The start site is being moved 78 nt downstream from chromosomal coordinate 774618 to 774696, resulting in a predicted protein of 537 aa, as opposed to the previously annotated 563 aa. The 1692-nt ORF is now 1614 nt.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata

2004-10-12 CEN2

Centromeric DNA elements CDEI, CDEII, and CDEIII were annotated based on Wieland et al. 2001 and Espelin et al. 2003.

Wieland G, et al. (2001) Determination of the binding constants of the centromere protein Cbf1 to all 16 centromere DNAs of Saccharomyces cerevisiae. Nucleic Acids Res 29(5):1054-60
SGD paper | PubMed Full-Text
Espelin CW, et al. (2003) Binding of the essential Saccharomyces cerevisiae kinetochore protein Ndc10p to CDEII. Mol Biol Cell 14(11):4557-68
SGD paper | PubMed Full-Text

2004-04-01 RUF8

Feature annotation removed per John McCutcheon and Sean Eddy.

McCutcheon JP and Eddy SR (2004) Detailed correction to: Computational identification of noncoding RNAs in Saccharomyces cerevisiae by comparative genomics Nucleic Acids Res. 31:4119-4128, 2003
SGD paper | Web Supplement

2004-04-01 YBR230W-A

ORF identified by John McCutcheon and Sean Eddy.

McCutcheon JP and Eddy SR (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28
SGD paper | PubMed | Full-Text | Comments & Errata

2004-01-07 YBL091C-A

Based on comparison to related fungi, Brachat et al., Blandin et al., and Cliften et al. all proposed an intron and 5' extension for YBL091C-A. The resulting ORF is in the same frame with the start codon shifted 316 bp upstream; the protein has a 76-residue extension at the N-terminus.

Blandin G, et al. (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6
SGD paper | PubMed | Full-Text
Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-12-17 YBR111W-A

The size of the first intron of YBR111W-A was increased and a second intron was added on the basis of conserved splice sites predicted by Cliften et al. 2003, as well as subsequent experimental evidence (GenBank AY278445). The chromosomal coordinates of the coding sequence have changed from 462094-462172..462175-462392 to 462094-462164..462245-462384..462455-462534.

Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-12-17 YBR255C-A

The boundaries of the intron in ORF YBR255C-A were shifted by 1 bp on 5' end and 2 bp on 3' end on basis of conserved splice sites in other fungal species as predicted by Blandin et al. 2000.

Blandin G, et al. (2000) Genomic exploration of the hemiascomycetous yeasts: 4. The genome of Saccharomyces cerevisiae revisited. FEBS Lett 487(1):31-6
SGD paper | PubMed | Full-Text

2003-09-22 YBR280C

The start site for YBR280C was moved 15 nt (5 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR172C

The start site for SMY2/YBR172C was moved 150 nt (50 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBL089W

The start site for AVT5/YBL089W was moved 150 nt (50 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. The numbering for both the nucleotides in the DNA coding sequence and the amino acids in the predicted protein have been updated. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBL068W

The start site for PRS4/YBL068W was moved 84 nt (28 codons) downstream based on the automated comparison of closely related Saccharomyces species by Kellis et al. 2003. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR095C

The start site for YBR095C was moved 69 nt (23 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR073W

The start site for RDH54/YBR073W was moved 102 nt (34 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR058C

The start site for UBP14/YBR058C was moved 66 nt (22 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR122C

The start site for MRPL36/YBR122C was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine; 3) The predicted protein translated from the conserved methionine contains a predicted mitochondrial targeting signal sequence (using both MitoProt (MIPS) and Predotar), while the predicted protein translated from the previously annotated S. cerevisiae start codon does not.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR264C

The start site for YPT10/YBR264C was moved 57 nt (19 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-22 YBR263W

The start site for SHM1/YBR263W was moved 225 nt (75 codons) downstream based on the automated comparison of closely-related Saccharomyces species by Kellis et al. Evidence supporting this change includes: 1) This is the predicted start methionine in the majority of Saccharomyces species orthologs analyzed by Kellis et al. and/or Cliften et al.; 2) Significant sequence conservation begins abruptly at this predicted start methionine.

Kellis M, et al. (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423(6937):241-54.
SGD paper | PubMed | Full-Text | Comments & Errata
Cliften P, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301(5629):71-6.
SGD paper | PubMed | Full-Text | Web Supplement

2003-09-09 TEL02L, TEL02R

The chromosomal locations for the following telomeric elements on Chromosome 2 were generously provided by Ed Louis and Dave Barton (University of Leicester, UK): TEL02L, TEL02L-XC, TEL02L-XR, TEL02L-YP, TEL02R, TEL02R-XC, TEL02R-XR, TEL02R-TR.

Note that TEL02L does have telomeric repeats (TEL02L-TR), but they are missing from the genome annotation due to sequencing difficulties encountered during the initial genome sequencing efforts in the 1990s.

2003-07-29 YBL039C-A, YBR121C-A, YBR196C-B, YBR221W-A

Thanks to Oshiro et al., Velculescu et al., and Basrai et al. for providing the coordinates of the following four ORFs on Chromosome 2: YBL039C-A, YBR121C-A, YBR196C-B, YBR221W-A.

Basrai MA, et al. (1999) NORF5/HUG1 is a component of the MEC1-mediated checkpoint response to DNA damage and replication arrest in Saccharomyces cerevisiae. Mol Cell Biol 19(10):7041-9
SGD paper | PubMed | Full-Text
Velculescu VE, et al. (1997) Characterization of the yeast transcriptome. Cell 88(2):243-51.
SGD paper | PubMed | Full-Text | YFGdb
Oshiro G, et al. (2002) Parallel identification of new genes in Saccharomyces cerevisiae. Genome Res 12(8):1210-20.
SGD paper | PubMed | Full-Text | Web Supplement | YFGdb

2003-07-29 YBR056W-A, YBR109W-A, YBR126W-B

Thanks to MIPS for providing the coordinates of the following three ORFs on Chromosome 2: YBR056W-A, YBR109W-A, YBR126W-B.

2003-07-29 YBL006W-A, YBL071C-B, YBL100W-C, YBL113W-A, YBR126W-A, YBR131C-A, YBR141W-A, YBR182C-A, YBR223W-A, YBR296C-A, YBR298C-A

Thanks to Kumar et al. for providing the coordinates of the following 11 ORFs on Chromosome 2: YBL006W-A, YBL071C-B, YBL101W-C, YBL113W-A, YBR126W-A, YBR131C-A, YBR141W-A, YBR182C-A, YBR223W-A, YBR296C-A, YBR298C-A.

Kumar A, et al. (2002) An integrated approach for finding overlooked genes in yeast. Nat Biotechnol 20(1):58-63.
SGD paper | PubMed | Full-Text | YFGdb | Comments & Errata

2003-07-29 YBL008W-A, YBL068W-A, YBL103C-A, YBR072C-A, YBR076C-A, YBR196C-A, YBR200W-A

Thanks to Kessler et al. for providing the coordinates of the following seven ORFs on Chromosome 2: YBL008W-A, YBL068W-A, YBL103C-A, YBR072C-A, YBR076C-A, YBR196C-A, YBR200W-A.

Kessler MM, et al. (2003) Systematic discovery of new genes in the Saccharomyces cerevisiae genome. Genome Res 13(2):264-71.
SGD paper | PubMed | Full-Text

2003-07-29 YBL039W-B, YBR111W-A

Thanks to Brachat et al. for providing the coordinates of the following two ORFs on Chromosome 2 based on homology to Ashbya gossypii: YBL039W-B, YBR111W-A.

Brachat S, et al. (2003) Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biol 4(7):R45.
SGD paper | PubMed | Full-Text

2003-03-06 RUF8

Thanks to John McCutcheon and Sean Eddy for providing the coordinates for the following RNA features: SNR82, SNR83, SNR84, RUF4, RUF5-1, RUF5-2, RUF6, RUF7, and RUF8.

McCutcheon JP and Eddy SR (2003) Computational identification of non-coding RNAs in Saccharomyces cerevisiae by comparative genomics. Nucleic Acids Res 31(14):4119-28
SGD paper | PubMed | Full-Text | Comments & Errata

2001-01-30 YBL071W-A

ORF added based on similarity to an S. pombe gene (information submitted by Valerie Wood).

2000-08-11 YBR089C-A

old name: YBR090C-A; new name: YBR089C-A; date: 11/1998; old coord: ChrII 426447 426148; SGDID: S0002157; Name changed due to nomenclature

2000-07-14 YBR186W

Davis et al. demonstrated an intron and 3' exon in PCH2/YBR186W that were not previously annotated. The addition of this intron and exon alters the C-terminus of the protein product and increases the protein size from 537 to 564 amino acids.

Davis CA, et al. (2000) Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast. Nucleic Acids Res 28(8):1700-6
SGD paper | PubMed | Full-Text

1999-11-17 YBL059C-A

A new ORF, YBL059C-A, was identified from EST analysis (Evan Hurowitz in Pat Brown's lab).

1998-05-21 YBL091C-A, YBL107W-A

The following 27 ORFs were added to the genome annotation based on Velculescu et al. 1997: YBL091C-A, YBL107W-A, YCR018C-A, YCR102W-A, YDL130W-A, YDR034C-A, YDR034W-B, YDR363W-A, YDR525W-A, YER048W-A, YER091C-A, YER138W-A, YGR122C-A, YIR020W-B, YKL033W-A, YKL053C-A, YKL162C-A, YLL018C-A, YLR262C-A, YML081C-A, YMR046W-A, YMR158C-B, YMR194C-A, YNR032C-A, YOL013W-A, YOR298C-A, and YPR002C-A.