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 |
|---|---|---|---|---|---|---|---|---|
| 4568-YIL088C | YIL088C | AVT7 | NA | Putative transporter; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters | Core | NA | NA | NA |
| 4569-YIL089W | YIL089W | NA | NA | Protein of unknown function found in the ER and vacuole lumen; overexpression of YIL089W affects endocytic protein trafficking | Core | NA | NA | NA |
| 4570-YIL090W | YIL090W | ICE2 | NA | Integral ER membrane protein with type-III transmembrane domains; required for maintenance of ER zinc homeostasis; necessary for efficient targeting of Trm1p tRNA methyltransferase to inner nuclear membrane; mutations cause defects in cortical ER morphology in both the mother and daughter cells | Core | NA | NA | NA |
| 4571-YIL091C | YIL091C | UTP25 | rRNA-binding ribosome biosynthesis protein UTP25 | Nucleolar protein; required for 35S pre-RNA processing and 40S ribosomal subunit biogenesis | Core | NA | NA | NA |
| 4572-YIL092W | YIL092W | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus | Core | NA | NA | NA |
| 4573-YIL093C | YIL093C | RSM25 | mitochondrial 37S ribosomal protein RSM25 | Mitochondrial ribosomal protein of the small subunit | Core | NA | NA | NA |
| 4574-YIL094C | YIL094C | LYS12 | homoisocitrate dehydrogenase|LYS11|LYS10 | Homo-isocitrate dehydrogenase; an NAD-linked mitochondrial enzyme required for the fourth step in the biosynthesis of lysine, in which homo-isocitrate is oxidatively decarboxylated to alpha-ketoadipate | Core | NA | NA | NA |
| 4575-YIL095W | YIL095W | PRK1 | serine/threonine protein kinase PRK1|PAK1 | Protein serine/threonine kinase; regulates the organization and function of the actin cytoskeleton and reduces endocytic ability of cell through the phosphorylation of the Pan1p-Sla1p-End3p protein complex; PRK1 has a paralog, ARK1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4576-YIL096C | YIL096C | BMT5 | 25S rRNA (uracil2634-N3)-methyltransferase | Methyltransferase required for m3U2634 methylation of the 25S rRNA; S-adenosylmethionine-dependent; associates with precursors of the 60S ribosomal subunit; predicted to be involved in ribosome biogenesis | Core | NA | NA | NA |
| 4577-YIL097W | YIL097W | FYV10 | glucose-induced degradation complex subunit FYV10|GID9 | Subunit of GID complex; involved in proteasome-dependent catabolite inactivation of gluconeogenic enzymes FBPase, PEPCK, and c-MDH; forms dimer with Rmd5p that is then recruited to GID Complex by Gid8p; contains a degenerate RING finger motif needed for GID complex ubiquitin ligase activity in vivo, as well as CTLH and CRA domains; plays role in anti-apoptosis; required for survival upon exposure to K1 killer toxin | Core | NA | NA | NA |
| 4578-YIL098C | YIL098C | FMC1 | NA | Mitochondrial matrix protein; required for assembly or stability at high temperature of the F1 sector of mitochondrial F1F0 ATP synthase; null mutant temperature sensitive growth on glycerol is suppressed by multicopy expression of Odc1p | Core | NA | NA | NA |
| 4579-YIL099W | YIL099W | SGA1 | glucan 1,4-alpha-glucosidase | Intracellular sporulation-specific glucoamylase; involved in glycogen degradation; induced during starvation of a/a diploids late in sporulation, but dispensable for sporulation | Core | NA | NA | NA |
| 4580-YIL100W_NumOfGenes_2 | YIL100W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; completely overlaps the dubious ORF YIL100C-A | Accessory | Ancestral | NA | NA |
| 4581-YIL101C | YIL101C | XBP1 | NA | Transcriptional repressor; binds promoter sequences of cyclin genes, CYS3, and SMF2; not expressed during log phase of growth, but induced by stress or starvation during mitosis, and late in meiosis; represses 15% of all yeast genes as cells transition to quiescence; important for maintaining G1 arrest and for longevity of quiescent cells; member of Swi4p/Mbp1p family; phosphorylated by Cdc28p; relative distribution to nucleus increases upon DNA replication stress | Core | NA | NA | NA |
| 4582-YIL102C | YIL102C | NA | NA | Putative protein of unknown function | Core | NA | NA | NA |