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 |
|---|---|---|---|---|---|---|---|---|
| 7283-YOR322C | YOR322C | LDB19 | ART1 | Alpha-arrestin involved in ubiquitin-dependent endocytosis; regulates endocytosis of plasma membrane proteins by recruiting the ubiquitin ligase Rsp5p to its targets; involved in the basal internalization and turnover of alpha-factor receptor Ste2p; recruits ubiquitin ligase Rsp5p to Ste2p via its 2 PPXY motifs; inhibited by Npr1p-mediated phosphorylation, which affects translocation between the cytosol and the plasma membrane | Core | NA | NA | NA |
| 7284-YOR323C | YOR323C | PRO2 | glutamate-5-semialdehyde dehydrogenase | Gamma-glutamyl phosphate reductase; catalyzes the second step in proline biosynthesis | Core | NA | NA | NA |
| 7285-YOR324C_NumOfGenes_2 | YOR324C | FRT1 | HPH1 | Tail-anchored ER membrane protein of unknown function; substrate of the phosphatase calcineurin; interacts with homolog Frt2p; promotes cell growth in stress conditions, possibly via a role in posttranslational translocation; FRT1 has a paralog, FRT2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7286-YOR326W | YOR326W | MYO2 | myosin 2|CDC66 | Type V myosin motor involved in actin-based transport of cargos; required for the polarized delivery of secretory vesicles, the vacuole, late Golgi elements, peroxisomes, and the mitotic spindle; MYO2 has a paralog, MYO4, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7287-YOR327C | YOR327C | SNC2 | SNAP receptor SNC2 | Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; Snc2p levels regulated by Vps45p; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC2 has a paralog, SNC1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7288-YOR328W | YOR328W | PDR10 | ATP-binding cassette multidrug transporter PDR10 | ATP-binding cassette (ABC) transporter; multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p | Core | NA | NA | NA |
| 7289-YOR329C | YOR329C | SCD5 | SCD7|FTB1 | Protein required for normal actin organization and endocytosis; targeting subunit for protein phosphatase type 1; undergoes Crm1p-dependent nuclear-cytoplasmic shuttling; multicopy suppressor of clathrin deficiency | Core | NA | NA | NA |
| 7290-YOR329W-A | YOR329W-A | NA | NA | Dubious open reading frame unlikely to encode a functional protein; identified by fungal homology and RT-PCR | Core | NA | NA | NA |
| 7291-YOR330C | YOR330C | MIP1 | DNA-directed DNA polymerase gamma MIP1 | Mitochondrial DNA polymerase gamma; single subunit of mitochondrial DNA polymerase in yeast, in contrast to metazoan complex of catalytic and accessory subunits; polymorphic in yeast, petites occur more frequently in some lab strains; human ortholog POLG complements yeast mip1 mutant; mutations in human POLG associated with Alpers-Huttenlocher syndrome (AHS), progressive external ophthalmoplegia (PEO), parkinsonism, other mitochondrial diseases | Core | NA | NA | NA |
| 7292-YOR332W_NumOfGenes_2 | YOR332W | VMA4 | H(+)-transporting V1 sector ATPase subunit E | Subunit E of the V1 domain of the vacuolar H+-ATPase (V-ATPase); V-ATPase is an electrogenic proton pump found throughout the endomembrane system; V1 domain has eight subunits; required for the V1 domain to assemble onto the vacuolar membrane; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 7293-YOR334W_NumOfGenes_2 | YOR334W | MRS2 | NA | Mitochondrial inner membrane Mg(2+) channel; required for maintenance of intramitochondrial Mg(2+) concentrations at the correct level to support splicing of group II introns; similar to bacterial CorA | Core | NA | NA | NA |
| 7294-YOR335C_NumOfGenes_2 | YOR335C | ALA1 | alanine--tRNA ligase|CDC64 | Cytoplasmic and mitochondrial alanyl-tRNA synthetase; required for protein synthesis; point mutation (cdc64-1 allele) causes cell cycle arrest at G1; lethality of null mutation is functionally complemented by human homolog AARS; mutations in human homolog AARS are associated with autoimmune disease polymyositis/dermatomyositis | Core | NA | NA | NA |
| 7295-YOR336W | YOR336W | KRE5 | NA | Protein required for beta-1,6 glucan biosynthesis; mutations result in aberrant morphology and severe growth defects | Core | NA | NA | NA |
| 7296-YOR337W | YOR337W | TEA1 | NA | Ty1 enhancer activator involved in Ty enhancer-mediated transcription; required for full levels of Ty enhancer-mediated transcription; C6 zinc cluster DNA-binding protein | Core | NA | NA | NA |
| 7297-YOR338W | YOR338W | NA | NA | Putative protein of unknown function; YOR338W transcription is regulated by Azf1p and its transcript is a specific target of the G protein effector Scp160p; identified as being required for sporulation in a high-throughput mutant screen; YOR338W has a paralog, FUN19, that arose from the whole genome duplication | Core | NA | NA | NA |