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 |
|---|---|---|---|---|---|---|---|---|
| 2273-YBR283C | YBR283C | SSH1 | NA | Subunit of the Ssh1 translocon complex; Sec61p homolog involved in co-translational pathway of protein translocation; not essential | Core | NA | NA | NA |
| 2274-YBR284W | YBR284W | NA | metallo-dependent hydrolase superfamily protein | Putative metallo-dependent hydrolase superfamily protein; similar to AMP deaminases but lacks key catalytic residues and does not rescue purine nucleotide metabolic defect of quadruple aah1 ade8 amd1 his1 mutant; null mutant exhibits longer telomeres, altered Ty mobility, decreased resistance to rapamycin and wortmannin; induced in response to hydrostatic pressure; not an essential gene; YBR284W has a paralog, YJL070C, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2275-YBR285W | YBR285W | NA | NA | Putative protein of unknown function; YBR285W is not an essential gene | Core | NA | NA | NA |
| 2276-YBR286W | YBR286W | APE3 | APY1 | Vacuolar aminopeptidase Y; processed to mature form by Prb1p | Core | NA | NA | NA |
| 2277-YBR287W | YBR287W | NA | ZSP1 | Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER; YBR287W is not an essential gene | Core | NA | NA | NA |
| 2278-YBR288C | YBR288C | APM3 | YKS6 | Mu3-like subunit of the clathrin associated protein complex (AP-3); functions in transport of alkaline phosphatase to the vacuole via the alternate pathway | Core | NA | NA | NA |
| 2279-YBR289W | YBR289W | SNF5 | TYE4|SWI10|HAF4 | Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf6p; relocates to the cytosol under hypoxic conditions | Core | NA | NA | NA |
| 2280-YBR290W | YBR290W | BSD2 | NA | Heavy metal ion homeostasis protein; facilitates trafficking of Smf1p and Smf2p metal transporters to vacuole where they are degraded; acts as an adaptor protein with Rsp5p in the regulated endocytosis of Smf1p and is itself ubiquitylated by Rsp5p; controls metal ion transport, prevents metal hyperaccumulation, functions in copper detoxification | Core | NA | NA | NA |
| 2281-YBR291C | YBR291C | CTP1 | NA | Mitochondrial inner membrane citrate transporter; member of the mitochondrial carrier family | Core | NA | NA | NA |
| 2282-YBR292C | YBR292C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; YBR292C is not an essential gene | Accessory | Ancestral | NA | NA |
| 2283-YBR293W | YBR293W | VBA2 | NA | Permease of basic amino acids in the vacuolar membrane | Accessory | Ancestral | NA | NA |
| 2284-YBR294W | YBR294W | SUL1 | sulfate permease|SFP2 | High affinity sulfate permease of the SulP anion transporter family; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates | Accessory | Ancestral | NA | NA |
| 2285-YBR295W | YBR295W | PCA1 | cation-transporting P-type ATPase PCA1|PAY2|CAD2 | Cadmium transporting P-type ATPase; may also have a role in copper and iron homeostasis; stabilized by Cd binding, which prevents ubiquitination; S288C and other lab strains contain a G970R mutation which eliminates Cd transport function | Accessory | Ancestral | NA | NA |
| 2286-YBR296C | YBR296C | PHO89 | ITN1 | Plasma membrane Na+/Pi cotransporter; active in early growth phase; similar to phosphate transporters of Neurospora crassa; transcription regulated by inorganic phosphate concentrations and Pho4p; mutations in related human transporter genes hPit1 and hPit2 are associated with hyperphosphatemia-induced calcification of vascular tissue and familial idiopathic basal ganglia calcification | Accessory | Ancestral | NA | NA |
| 2287-YBR296C-A | YBR296C-A | NA | NA | Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Accessory | Unknown | NA | NA |