Difference between revisions of "SGD Newsletter, Spring 2021"
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==R64.3 Annotation Update== | ==R64.3 Annotation Update== | ||
| + | SGD curators periodically update the chromosomal annotations of the ''S. cerevisiae'' Reference Genome, which is derived from strain [http://www.yeastgenome.org/strain/S288C/overview S288C]. | ||
| + | The R64.3 annotation release included various updates and additions: | ||
| + | |||
| + | *7 new ORFs: [https://www.yeastgenome.org/locus/S000303806 OTO1/YGR227C-A], [https://www.yeastgenome.org/locus/S000303807 YHR052C-B], [https://www.yeastgenome.org/locus/S000303808 YHR054C-B], [https://www.yeastgenome.org/locus/S000303810 YJR107C-A], [https://www.yeastgenome.org/locus/S000303811 YKL104W-A], [https://www.yeastgenome.org/locus/S000303812 YLR379W-A], [https://www.yeastgenome.org/locus/S000303813 YMR008C-A] | ||
| + | *5 new ncRNAs: [https://www.yeastgenome.org/locus/S000303802 GAL10-ncRNA], [https://www.yeastgenome.org/locus/S000303803 TBRT/XUT_2F-154], [https://www.yeastgenome.org/locus/S000303809 SUT169], [https://www.yeastgenome.org/locus/S000303814 PHO84 lncRNA], [https://www.yeastgenome.org/locus/S000303815 GAL4 lncRNA] | ||
| + | *2 new uORFs for [https://www.yeastgenome.org/locus/S000003139 ROK1/YGL171W] | ||
| + | *1 new recombination enhancer: [https://www.yeastgenome.org/locus/S000303804 RE] | ||
| + | *1 new LTR: [https://www.yeastgenome.org/locus/S000303805 YELWdelta27] | ||
| + | *3 ORFs with shifted translation starts: [https://www.yeastgenome.org/locus/S000000792 HPA3/YEL066W], [https://www.yeastgenome.org/locus/S000003773 YJR012C], [https://www.yeastgenome.org/locus/S000005204 LTO1/YNL260C] | ||
| + | *1 ORF with shifted translation stop plus new intron: [https://www.yeastgenome.org/locus/S000004755 LDO45/YMR147W] | ||
| + | *Changed feature_type (and SO_term) for non-transcribed spacers: [https://www.yeastgenome.org/locus/S000029714 NTS1-2], [https://www.yeastgenome.org/locus/S000029329 NTS2-1], [https://www.yeastgenome.org/locus/S000029706 NTS2-2] | ||
| + | *New systematic nomenclature system for [https://www.yeastgenome.org/search?q=YNC&category=locus entire annotated complement of ncRNAs] | ||
| + | |||
| + | Various sequence and annotation files are available on SGD's [http://sgd-archive.yeastgenome.org/sequence/S288C_reference/ Downloads] site. | ||
==Alliance== | ==Alliance== | ||
Revision as of 10:27, 21 May 2021
About this newsletter:
This is the Summer 2021 issue of the SGD newsletter. The goal of this newsletter is to inform our users about new features in SGD and to foster communication within the yeast community.
You can also subscribe to SGD's RSS feed to receive updates on SGD news:
http://www.yeastgenome.org/feed
Contents
R64.3 Annotation Update
SGD curators periodically update the chromosomal annotations of the S. cerevisiae Reference Genome, which is derived from strain S288C.
The R64.3 annotation release included various updates and additions:
- 7 new ORFs: OTO1/YGR227C-A, YHR052C-B, YHR054C-B, YJR107C-A, YKL104W-A, YLR379W-A, YMR008C-A
- 5 new ncRNAs: GAL10-ncRNA, TBRT/XUT_2F-154, SUT169, PHO84 lncRNA, GAL4 lncRNA
- 2 new uORFs for ROK1/YGL171W
- 1 new recombination enhancer: RE
- 1 new LTR: YELWdelta27
- 3 ORFs with shifted translation starts: HPA3/YEL066W, YJR012C, LTO1/YNL260C
- 1 ORF with shifted translation stop plus new intron: LDO45/YMR147W
- Changed feature_type (and SO_term) for non-transcribed spacers: NTS1-2, NTS2-1, NTS2-2
- New systematic nomenclature system for entire annotated complement of ncRNAs
Various sequence and annotation files are available on SGD's Downloads site.
Alliance
YeastMine Updates and New Templates
SGD has updated the current Gene-->UTRs template with newly calculated 5' and 3' UTR sequence/coordinates. We have also added a new template for Transcripts based on the data from the Pelachano et al 2013 study.
