Kyla: Created page with "These tables list positions of nucleotide modifications, both pseudouridylation and ribose 2'-O-methylation, within ribosomal RNAs (5S rRNA, [[#5.8SrRNA|5.8S rRNA]..."

2014-04-09T15:31:50Z

Created page with "These tables list positions of nucleotide modifications, both pseudouridylation and ribose 2'-O-methylation, within ribosomal RNAs (5S rRNA, [[#5.8SrRNA|5.8S rRNA]..."

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These tables list positions of nucleotide modifications, both pseudouridylation and ribose 2'-O-methylation, within ribosomal RNAs ([[#5SrRNA|5S rRNA]], [[#5.8SrRNA|5.8S rRNA]], [[#18SrRNA|18S rRNA]], and [[#25SrRNA|25S rRNA]]) and snRNAs ([[#U1snRNA|U1 snRNA]], [[#U2snRNA|U2 snRNA]], and [[#U5snRNA|U5 snRNA]]). Many of these modifications are performed by small nucleolar ribonucleic acid complexes (snoRNPs) where a specific snoRNA guides the position of modification; in these cases, only the snoRNA is listed, though the proteins of the snoRNP complex are required to catalyze the modification. For a list of all snoRNAs, see the table of [http://yeastmine.yeastgenome.org/yeastmine/results.do?trail=%7Cresults.517&table=results.517&queryBuilder=snoRNAs snoRNAs in ''S. cerevisiae'']. Other modifications are directed and catalyzed by a protein enzyme without snoRNA guidance. Within the sequence context column, the modified nucleotide is shown in red.
 

Many thanks to Wayne Decatur and Dorota Piekna-Przybylska for providing the coordinates of the modification sites within the 18S and 25S rRNAs with respect to the genome of ''S. cerevisiae''. Note that older papers have used alternate coordinate systems; links to tables providing the correspondance between old and current coordinates are provided within these two tables. For more detailed information about the snoRNAs, see the SGD Locus Summaries for each or the [http://people.biochem.umass.edu/sfournier/fournierlab/snornadb/main.php snoRNA database at UMass Amherst].

{| {{table}} border="1"
| align="center" style="background:#FFDEAD;" colspan=4 id=5SrRNA|'''Modified Position within the 5S rRNA''' ''compiled June 2008''
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
|501
|pseudouridylation
|AACUG'''U'''AGUUA
|[http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=PUS7 PUS7]
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
| colspan=4|1. '''Decatur WA and Schnare MN, et al.''' (2008) Different mechanisms for Pseudouridine formation in yeast 5S and 5.8S rRNAs. Mol Cell Biol 28(10):3089-100 [http://www.yeastgenome.org/reference/S000125816/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/18332121?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=5.8SrRNA|'''Modified Position within the 5.8S rRNA''' ''compiled June 2008''
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
|731
|pseudouridylation
|GUGAA'''U'''UGCAG
|[http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR43 snR43]
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
| colspan=4|1. '''Decatur WA and Schnare MN, et al.''' (2008) Different mechanisms for Pseudouridine formation in yeast 5S and 5.8S rRNAs. Mol Cell Biol 28(10):3089-100 [http://www.yeastgenome.org/reference/S000125816/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/18332121?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=18srRNA|'''Modified Position within the 18S rRNA''' ''compiled June 2007'' [http://people.biochem.umass.edu/sfournier/fournierlab/snornadb/nm18s.php ''see alternate numbering systems for the 18S ribose methylations''] [http://people.biochem.umass.edu/sfournier/fournierlab/snornadb/psi18s.php ''see alternate numbering systems for the 18S pseudouridylations'']
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
|28
|ribose 2'-O-methylation (on A)
|GUCAU'''A'''UGCUU
|[http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR74 snR74]
|-
| 100
| ribose 2'-O-methylation (on A)
| GGCUCAUUAAA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR51 snR51]
|-
| 106
| pseudouridylation
| UUAAAUCAGUU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR44 snR44]
|-
| 120
| pseudouridylation
| GUUUAUUUGAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR49 snR49]
|-
| 211
| pseudouridylation
| AUUUAUUAGAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR49 snR49]
|-
| 302
| pseudouridylation
| UCAAAUUUCUG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR49 snR49]
|-
| 414
| ribose 2'-O-methylation (on C)
| CACAUCCAAGG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR128 snR128]
|-
| 420
| ribose 2'-O-methylation (on A)
| CAAGGAAGGCA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR52 snR52]
|-
| 436
| ribose 2'-O-methylation (on A)
| CGCGCAAAUUA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR87 snR87]
|-
| 466
| pseudouridylation
| GGUAGUGACAA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR189 snR189]
|-
| 541
| ribose 2'-O-methylation (on A)
| CGAGGAACAAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR41 snR41]
|-
| 578
| ribose 2'-O-methylation (on U)
| CGCGGUAAUUC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR77 snR77]
|-
| 619
| ribose 2'-O-methylation (on A)
| CAGUUAAAAAG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR47 snR47]
|-
| 632
| pseudouridylation
| CGUAGUUGAAC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR161 snR161]
|-
| 759
| pseudouridylation
| AAAAUUAGAGU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR80 snR80]
|-
| 766
| pseudouridylation
| GAGUGUUCAAA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR161 snR161]
|-
| 796
| ribose 2'-O-methylation (on A)
| AUAUUAGCAUG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR53 snR53]
|-
| 974
| ribose 2'-O-methylation (on A)
| CAAGAACGAAA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR54 snR54]
|-
| 999
| pseudouridylation
| GAUGAUCAGAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR31 snR31]
|-
| 1007
| ribose 2'-O-methylation (on C)
| GAUACCGUCGU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR79 snR79]
|-
| 1126
| ribose 2'-O-methylation (on G)
| CGCAAGGCUGA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR41 snR41]
|-
| 1181
| pseudouridylation
| GCGGCUUAAUU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR85 snR85]
|-
| 1187
| pseudouridylation
| UAAUUUGACUC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR36 snR36]
|-
| 1191
| pseudouridylation Note that subsequent additional modifications generate m1acp3-psi.
| UUGACUCAACA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR35 snR35]
|-
| 1269
| ribose 2'-O-methylation (on U)
| GGUGGUGGUGC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR55 snR55]
|-
| 1271
| ribose 2'-O-methylation (on G)
| UGGUGGUGCAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR40 snR40]
|-
| 1290
| pseudouridylation
| UUAGUUGGUGG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR83 snR83]
|-
| 1415
| pseudouridylation
| AAGUUUGAGGC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR83 snR83]
|-
| 1428
| ribose 2'-O-methylation (on G)
| UAACAGGUCUG
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR56 snR56]
|-
| 1572
| ribose 2'-O-methylation (on G)
| UCAACGAGGAA
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR57 nR57]
|-
| 1639
| ribose 2'-O-methylation (on C)
| CACCGCCCGUC
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR70 snR70]
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
|colspan=4|1. All information in this table courtesy of Wayne Decatur and Dorota Piekna-Przybylska; also see the table of snoRNAs or the locus summary and literature guide pages for each specific gene to view references.
|-
|colspan=4|2. Piekna-Przybylska D, et al. (2007) New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA. RNA 13(3):305-12 [http://www.yeastgenome.org/reference/S000120772/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/17283215?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=25SrRNA|'''Modified Position within the 25S rRNA''' ''compiled June 2007'' [http://people.biochem.umass.edu/sfournier/fournierlab/snornadb/nm25s.php ''see alternate numbering systems for the 25S ribose methylations''] [http://people.biochem.umass.edu/sfournier/fournierlab/snornadb/psi25s.php see alternate numbering systems for the 25S pseudouridylations]
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
| 649
| ribose 2'-O-methylation (on A)
| GAAACACGGAC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR1 snR18]
|-
| 650
| ribose 2'-O-methylation (on C)
| AAACACGGACC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR18 snR18]
|-
| 663
| ribose 2'-O-methylation (on C)
| GGAGUCUAACG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR58 snR58]
|-
| 776
| pseudouridylation
| AUGGAUUUGAG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR80 snR80]
|-
| 805
| ribose 2'-O-methylation (on G)
| GACCCGAAAGA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR39B snR39B]
|-
| 807
| ribose 2'-O-methylation (on A)
| CCCGAAAGAUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR39 snR39] [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR59 snR59]
|-
| 817
| ribose 2'-O-methylation (on A)
| GGUGAACUAUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR60 snR60]
|-
| 867
| ribose 2'-O-methylation (on G)
| UCGUAGCGGUU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR50 snR50]
|-
| 876
| ribose 2'-O-methylation (on A)
| UUCUGACGUGC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR72 snR72]
|-
| 898
| ribose 2'-O-methylation (on U)
| CGAAUUUGGGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR40 snR40]
|-
| 908
| ribose 2'-O-methylation (on G)
| UAUAGGGGCGA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR60 snR60]
|-
| 960
| pseudouridylation
| UUCCCUCAGGA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR8 snR8]
|-
| 966
| pseudouridylation
| CAGGAUAGCAG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR43 snR43]
|-
| 986
| pseudouridylation
| UCAGUUUUAUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR8 snR8]
|-
| 990
| pseudouridylation
| UUUUAUGAGGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR49 snR49]
|-
| 1004
| pseudouridylation
| GCGAAUGAUUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR5 snR5]
|-
| 1042
| pseudouridylation
| CCUAUUCUCAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR33 snR33]
|-
| 1052
| pseudouridylation
| AACUUUAAAUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR81 snR81]
|-
| 1056
| pseudouridylation
| UUAAAUAUGUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR44 snR44]
|-
| 1110
| pseudouridylation
| AGCUUUUAGUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR82 snR82]
|-
| 1124
| pseudouridylation
| CAUUUUUGGUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR5 snR5]
|-
| 1133
| ribose 2'-O-methylation (on A)
| UAAGCAGAACU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR61 snR61]
|-
| 1437
| ribose 2'-O-methylation (on C)
| CAGAUCUUGGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR24 snR24]
|-
| 1449
| ribose 2'-O-methylation (on C)
| GUAGUAGCAAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR24 snR24]
|-
| 1450
| ribose 2'-O-methylation (on C)
| UAGUAGCAAAU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR24 snR24]
|-
| 1888
| ribose 2'-O-methylation (on U)
| AAUAAUGUAGA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR62 snR62]
|-
| 2129
| pseudouridylation
| GAAUCUGACUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR3 snR3]
|-
| 2133
| pseudouridylation
| CUGACUGUCUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR3 snR3]
|-
| 2191
| pseudouridylation
| UGAUUUCUGCC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR32 snR32]
|-
| 2197
| ribose 2'-O-methylation (on C)
| CUGCCCAGUGC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR76 snR76]
|-
| 2220
| ribose 2'-O-methylation (on A)
| AGUGAAGAAAU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR47 snR47]
|-
| 2256
| ribose 2'-O-methylation (on A)
| GAGUAACUAUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR63 snR63]
|-
| 2258
| pseudouridylation
| GUAACUAUGAC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR191 snR191]
|-
| 2260
| pseudouridylation
| AACUAUGACUC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR191 snR191]
|-
| 2264
| pseudouridylation
| AUGACUCUCUU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR3 snR3]
|-
| 2266
| pseudouridylation
| GACUCUCUUAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR84 snR84]
|-
| 2314
| pseudouridylation
| AUGAAUGGAUU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR86 snR86]
|-
| 2340
| pseudouridylation
| GUCCCUAUCUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR9 snR9]
|-
| 2349
| pseudouridylation
| UACUAUCUAGC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR82 snR82]
|-
| 2280
| ribose 2'-O-methylation (on A)
| AGCCAAAUGCC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR13 snR13]
|-
| 2281
| ribose 2'-O-methylation (on A)
| GCCAAAUGCCU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR13 snR13]
|-
| 2288
| ribose 2'-O-methylation (on G)
| GCCUCGUCAUC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR75 snR75]
|-
| 2337
| ribose 2'-O-methylation (on C)
| ACUGUCCCUAU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR64 snR64]
|-
| 2347
| ribose 2'-O-methylation (on U)
| UCUACUAUCUA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR65 snR65]
|-
| 2351
| pseudouridylation
| CUAUCUAGCGA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR82 snR82]
|-
| 2416
| pseudouridylation
| UGAGCUUGACU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR11 snR11]
|-
| 2417
| ribose 2'-O-methylation (on U)
| GAGCUUGACUC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR66 snR66]
|-
| 2421
| ribose 2'-O-methylation (on U)
| UUGACUCUAGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR78 snR78]
|-
| 2619
| ribose 2'-O-methylation (on G)
| GGCUGGGGCGG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR67 snR67]
|-
| 2640
| ribose 2'-O-methylation (on A)
| AAACGAUAACG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR68 snR68]
|-
| 2724
| ribose 2'-O-methylation (on U)
| UGAUUUUCAGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR67 snR67]
|-
| 2729
| ribose 2'-O-methylation (on U)
| UUCAGUGUGAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR51 snR51]
|-
| 2735
| pseudouridylation
| GUGAAUACAAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR189 snR189]
|-
| 2791
| ribose 2'-O-methylation (on G)
| GGCUAGAGGUG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR48 snR48]
|-
| 2793
| ribose 2'-O-methylation (on G)
| CUAGAGGUGCC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR48 snR48]
|-
| 2815
| ribose 2'-O-methylation (on G)
| CACAGGGAUAA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR38 nR38]
|-
| 2826
| pseudouridylation
| CUGGCUUGUGG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR34 snR34]
|-
| 2865
| pseudouridylation
| UUUGAUUCUUC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR46 snR46]
|-
| 2880
| pseudouridylation
| UCGGCUCUUCC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR34 snR34]
|-
| 2921
| ribose 2'-O-methylation (on U)
| UGGAUUGUUCA
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR52 snR52]
|-
| 2922
| ribose 2'-O-methylation (on G)
| GGAUUGUUCAC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=SPB1 SPB1]
|-
| 2923
| pseudouridylation
| GAUUGUUCACC
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR10 snR10]
|-
| 2944
| pseudouridylation
| GAACGUGAGCU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR37 snR37]
|-
| 2946
| ribose 2'-O-methylation (on A)
| ACGUGAGCUGG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR71 snR71]
|-
| 2948
| ribose 2'-O-methylation (on C)
| GUGAGCUGGGU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR69 snR69]
|-
| 2959
| ribose 2'-O-methylation (on C)
| UUAGACCGUCG
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR73 snR73]
|-
| 2975
| pseudouridylation
| CAGGUUAGUUU
| [http://www.yeastgenome.org/cgi-bin/locus.pl?locus=snR42 snR42]
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
|colspan=4|1. All information in this table courtesy of Wayne Decatur and Dorota Piekna-Przybylska; also see the table of snoRNAs or the locus summary and literature guide pages for each specific gene to view references.
|-
|colspan=4|2. Piekna-Przybylska D, et al. (2007) New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA. RNA 13(3):305-12 [http://www.yeastgenome.org/reference/S000120772/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/17283215?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=U1snRNA|'''Modified Position within the [http://www.yeastgenome.org/cgi-bin/locus.fpl?dbid=S000007295 U1 snRNA]''' ''compiled June 2007''
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
| 51
| pseudouridylation
| AUACUUACCU
| not yet known
|-
| 61
| pseudouridylation
| AUACUUACCUU
| not yet known
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
|colspan=4|1. '''Massenet S, ''et al''.''' (1999) Pseudouridine mapping in the Saccharomyces cerevisiae spliceosomal U small nuclear RNAs (snRNAs) reveals that pseudouridine synthase pus1p exhibits a dual substrate specificity for U2 snRNA and tRNA. Mol Cell Biol 19(3):2142-54 [http://www.yeastgenome.org/reference/S000054022/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/10022901?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=U2snRNA|'''Modified Position within the [http://www.yeastgenome.org/cgi-bin/locus.fpl?dbid=S000006478 U2 snRNA]''' ''compiled June 2007''
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
| 351
| pseudouridylation
| AAGUGUAGUAU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=PUS7 PUS7]
|-
| 421
| pseudouridylation
| GUAUCUGUUCU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR81 snR81]
|-
| 441
| pseudouridylation
| UCUGUUCUUUU
| [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=PUS1 PUS1]
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
|colspan=4|1. '''Massenet S, ''et al''.''' (1999) Pseudouridine mapping in the Saccharomyces cerevisiae spliceosomal U small nuclear RNAs (snRNAs) reveals that pseudouridine synthase pus1p exhibits a dual substrate specificity for U2 snRNA and tRNA. Mol Cell Biol 19(3):2142-54 [http://www.yeastgenome.org/reference/S000054022/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/10022901?dopt=Abstract PubMed]
|-
|colspan=4|2. '''Ma X, ''et al''.''' (2003) Pseudouridylation (Psi) of U2 snRNA in S. cerevisiae is catalyzed by an RNA-independent mechanism. EMBO J 22(8):1889-97 [http://www.yeastgenome.org/reference/S000072999/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/12682021?dopt=Abstract PubMed]
|-
|colspan=4|3. '''Ma X, ''et al''.''' (2005) Pseudouridylation of yeast U2 snRNA is catalyzed by either an RNA-guided or RNA-independent mechanism. EMBO J 24(13):2403-13 [http://www.yeastgenome.org/reference/S000082374/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/15962000?dopt=Abstract PubMed]
|-
| align="center" style="background:#FFDEAD;" colspan=4 id=U5snRNA|'''Modified Position within the [http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=snR7 U5 snRNA]''' ''compiled June 2007''
|-
| align="center" style="background:#819FF7;"|'''Position'''
| align="center" style="background:#819FF7;"|'''Modification Type'''
| align="center" style="background:#819FF7;"|'''Sequence Context of Modification'''
| align="center" style="background:#819FF7;"|'''Gene Associated with Modification'''
|-
| 991
| pseudouridylation
| CCUUUUACCAG
| not yet known
|-
| align="center" style="background:#819FF7;" colspan=4|'''References'''
|-
|colspan=4|1. '''Massenet S, ''et al''.''' (1999) Pseudouridine mapping in the Saccharomyces cerevisiae spliceosomal U small nuclear RNAs (snRNAs) reveals that pseudouridine synthase pus1p exhibits a dual substrate specificity for U2 snRNA and tRNA. Mol Cell Biol 19(3):2142-54 [http://www.yeastgenome.org/reference/S000054022/overview SGD Paper] | [http://www.ncbi.nlm.nih.gov/pubmed/10022901?dopt=Abstract PubMed]
|}

Modified Nucleotides within RNAs in S. cerevisiae - Revision history

Kyla: Created page with "These tables list positions of nucleotide modifications, both pseudouridylation and ribose 2'-O-methylation, within ribosomal RNAs (5S rRNA, [[#5.8SrRNA|5.8S rRNA]..."