Saccharomyces cerevisiae Reference Assembly Panel Database (ScRAPdb)
Saccharomyces cerevisiae Reference Assembly Panel Database (ScRAPdb)
A searchable table of the S. cerevisiae pangenome ORFs defined in Peter et al. (2018) Nature (LINK) is provided below. The listed core/accessory classification and origin assignment are based on the original study. Click on the PanORF ID to find out the detailed presence/absence pattern of the corresponding pangenome ORF in both ScRAPdb and the 1002ScGP strain collections (which were recalculated by ScRAPdb).
| PanORF ID | SGD systematic Name | SGD standard name | Alias | Description | Type | Origin assignment | Mostly likely origin species | NCBI megablast hit |
|---|---|---|---|---|---|---|---|---|
| 5753-YLR294C | YLR294C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ATP14 | Core | NA | NA | NA |
| 5754-YLR295C | YLR295C | ATP14 | F1F0 ATP synthase subunit h | Subunit h of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 5755-YLR296W | YLR296W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 5756-YLR297W | YLR297W | NA | NA | Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; not an essential gene; induced by treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from nucleus to vacuole upon DNA replication stress; YLR297W has a paralog, YOR186W, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5757-YLR298C | YLR298C | YHC1 | U1C|U1-C | Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C protein, which is involved in formation of a complex between U1 snRNP and the pre-mRNA 5' splice site | Core | NA | NA | NA |
| 5758-YLR299W_NumOfGenes_2 | YLR299W | ECM38 | gamma-glutamyltransferase|CIS2 | Gamma-glutamyltranspeptidase; major glutathione-degrading enzyme; involved in detoxification of electrophilic xenobiotics; expression induced mainly by nitrogen starvation | Core | NA | NA | NA |
| 5759-YLR300W | YLR300W | EXG1 | glucan 1,3-beta-glucosidase|SCW6|BGL1 | Major exo-1,3-beta-glucanase of the cell wall; involved in cell wall beta-glucan assembly; exists as three differentially glycosylated isoenzymes; EXG1 has a paralog, SPR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5760-YLR301W | YLR301W | HRI1 | NA | Protein of unknown function that interacts with Sec72p and Hrr25p | Core | NA | NA | NA |
| 5761-YLR302C | YLR302C | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains | Accessory | Ancestral | NA | NA |
| 5762-YLR303W | YLR303W | MET17 | bifunctional cysteine synthase/O-acetylhomoserine aminocarboxypropyltransferase MET17|MET25|MET15 | O-acetyl homoserine-O-acetyl serine sulfhydrylase; required for Methionine and cysteine biosynthesis | Accessory | Ancestral | NA | NA |
| 5763-YLR304C | YLR304C | ACO1 | aconitate hydratase ACO1|GLU1 | Aconitase; required for the tricarboxylic acid (TCA) cycle and also independently required for mitochondrial genome maintenance; component of the mitochondrial nucleoid; mutation leads to glutamate auxotrophy; human homolog ACO2 can complement yeast null mutant | Core | NA | NA | NA |
| 5764-YLR305C | YLR305C | STT4 | 1-phosphatidylinositol 4-kinase STT4 | Phosphatidylinositol-4-kinase; functions in the Pkc1p protein kinase pathway; required for normal vacuole morphology, cell wall integrity, and actin cytoskeleton organization | Core | NA | NA | NA |
| 5765-YLR306W | YLR306W | UBC12 | NEDD8-conjugating protein UBC12 | Enzyme that mediates the conjugation of Rub1p; a ubiquitin-like protein, to other proteins; related to E2 ubiquitin-conjugating enzymes | Core | NA | NA | NA |
| 5766-YLR307C-A | YLR307C-A | NA | NA | Putative protein of unknown function | Core | NA | NA | NA |
| 5767-YLR307W | YLR307W | CDA1 | chitin deacetylase CDA1 | Chitin deacetylase; together with Cda2p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall | Core | NA | NA | NA |