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 |
|---|---|---|---|---|---|---|---|---|
| 3623-YFR036W | YFR036W | CDC26 | anaphase promoting complex subunit CDC26|SCD26|HIT3 | Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C); which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; relocalizes to the cytosol in response to hypoxia | Core | NA | NA | NA |
| 3624-YFR037C_NumOfGenes_2 | YFR037C | RSC8 | SWH3 | Component of the RSC chromatin remodeling complex; essential for viability and mitotic growth; homolog of SWI/SNF subunit Swi3p, but unlike Swi3p, does not activate transcription of reporters | Core | NA | NA | NA |
| 3625-YFR038W | YFR038W | IRC5 | putative ATPase | Putative ATPase containing the DEAD/H helicase-related sequence motif; null mutant displays increased levels of spontaneous Rad52p foci; SWAT-GFP and mCherry fusion proteins localize to the nucleus | Core | NA | NA | NA |
| 3626-YFR039C | YFR039C | OSW7 | NA | Protein involved in outer spore wall assembly; likely involved directly in dityrosine layer assembly; may be involved in response to high salt and changes in carbon source; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; deletion mutant has decreased spore survival in Drosophila feces; OSW7 has a paralog, SHE10, that arose from the whole genome duplication; paralogs are redundant for spore wall dityrosine assembly | Core | NA | NA | NA |
| 3627-YFR040W | YFR040W | SAP155 | NA | Protein required for function of the Sit4p protein phosphatase; forms a complex with Sit4p; member of a family of similar proteins including Sap4p, Sap185p, and Sap190p; protein abundance increases in response to DNA replication stress; SAP155 has a paralog, SAP4, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3628-YFR041C | YFR041C | ERJ5 | NA | Type I membrane protein with a J domain; required to preserve the folding capacity of the endoplasmic reticulum; loss of the non-essential ERJ5 gene leads to a constitutively induced unfolded protein response | Core | NA | NA | NA |
| 3629-YFR042W | YFR042W | KEG1 | NA | Integral membrane protein of the ER; physically interacts with Kre6p; has a role in the synthesis of beta-1,6-glucan in the cell wall; required for cell viability | Core | NA | NA | NA |
| 3630-YFR043C | YFR043C | IRC6 | NA | Clathrin coat accessory factor; involved in clathrin-mediated vesicle trafficking; may function to link the AP-1 clathrin adaptor complex with the Rab GTPase Ypt31p; has structural similarity to G-proteins; mouse homolog Aagab (p34) functionally complements irc6 null mutation; null mutant displays increased levels of spontaneous Rad52p foci | Core | NA | NA | NA |
| 3631-YFR044C | YFR044C | DUG1 | metallodipeptidase | Cys-Gly metallo-di-peptidase; forms a complex with Dug2p and Dug3p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p); human homolog CNDP2 can complement yeast dug1 mutant | Core | NA | NA | NA |
| 3632-YFR045W | YFR045W | NA | NA | Putative mitochondrial transport protein; null mutant is viable, exhibits decreased levels of chitin and normal resistance to calcofluor white | Core | NA | NA | NA |
| 3633-YFR046C | YFR046C | CNN1 | centromere-binding protein CNN1 | Kinetochore protein; associated with the essential kinetochore proteins Nnf1p and Spc24p; phosphorylated by Clb5-Cdk1, Mps1p, Ipl1p and to a lesser extent by Clb2-Cdk1; localizes to the lower region of the Ndc80 complex during anaphase and regulates KMN activity by inhibiting the Mtw1 and Spc105 complexes from binding to the Ndc80 complex; similar to metazoan CENP-T | Core | NA | NA | NA |
| 3634-YFR047C | YFR047C | BNA6 | nicotinate-nucleotide diphosphorylase (carboxylating)|QPT1 | Quinolinate phosphoribosyl transferase; required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p | Core | NA | NA | NA |
| 3635-YFR048W | YFR048W | RMD8 | NA | Cytosolic protein required for sporulation | Core | NA | NA | NA |
| 3636-YFR049W | YFR049W | YMR31 | KGD4|mitochondrial 37S ribosomal protein YMR31 | Subunit of the mitochondrial alpha-ketoglutarate dehydrogenase; recruits E3 subunit (Lpd1p) to the E1-E2 (Kgd1p, Kgd2p) core; has similarity to human mitochondrial ribosomal protein MRP-S36 | Accessory | Ancestral | NA | NA |
| 3637-YFR050C | YFR050C | PRE4 | proteasome core particle subunit beta 7 | Beta 7 subunit of the 20S proteasome | Accessory | Ancestral | NA | NA |