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 |
|---|---|---|---|---|---|---|---|---|
| 4793-YJL098W | YJL098W | SAP185 | NA | Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap190p; SAP185 has a paralog, SAP190, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4794-YJL099W | YJL099W | CHS6 | CSD3 | Member of the ChAPs (Chs5p-Arf1p-binding proteins) family; part of the exomer complex that mediates export of specific cargo proteins, including Chs3p, from the Golgi to the plasma membrane; primary component of the Chs5/6 complex that binds directly to membranes; CHS6 has a paralog, BCH2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4795-YJL100W | YJL100W | LSB6 | 1-phosphatidylinositol 4-kinase LSB6 | Type II phosphatidylinositol 4-kinase; binds Las17p, a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization | Core | NA | NA | NA |
| 4796-YJL101C | YJL101C | GSH1 | glutamate--cysteine ligase | Gamma glutamylcysteine synthetase; catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 4797-YJL102W | YJL102W | MEF2 | NA | Mitochondrial elongation factor involved in translational elongation | Core | NA | NA | NA |
| 4798-YJL103C | YJL103C | GSM1 | NA | Putative zinc cluster protein of unknown function; proposed to be involved in the regulation of energy metabolism, based on patterns of expression and sequence analysis | Core | NA | NA | NA |
| 4799-YJL104W | YJL104W | PAM16 | import motor complex subunit PAM16|TIM16|MIA1 | Subunit of the import motor (PAM complex); the PAM complex is a component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); forms a 1:1 subcomplex with Pam18p and inhibits its cochaperone activity; contains a J-like domain | Core | NA | NA | NA |
| 4800-YJL105W | YJL105W | SET4 | NA | Protein of unknown function, contains a SET domain; SET4 has a paralog, SET3, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4801-YJL106W | YJL106W | IME2 | protein kinase IME2|SME1 | Serine/threonine protein kinase involved in activation of meiosis; associates with Ime1p and mediates its stability, activates Ndt80p; IME2 expression is positively regulated by Ime1p; human CDK2 can complement ime2 null mutant | Core | NA | NA | NA |
| 4802-YJL107C | YJL107C | NA | NA | Putative protein of unknown function; expression is induced by activation of the HOG1 mitogen-activated signaling pathway and this induction is Hog1p/Pbs2p dependent; YJL107C and adjacent ORF, YJL108C are merged in related fungi | Core | NA | NA | NA |
| 4803-YJL108C | YJL108C | PRM10 | pheromone-regulated protein PRM10 | Pheromone-regulated protein; proposed to be involved in mating; predicted to have 5 transmembrane segments; induced by treatment with 8-methoxypsoralen and UVA irradiation | Core | NA | NA | NA |
| 4804-YJL109C | YJL109C | UTP10 | snoRNA-binding rRNA-processing protein UTP10 | Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA; mutant has increased aneuploidy tolerance | Core | NA | NA | NA |
| 4805-YJL110C | YJL110C | GZF3 | NIL2|DEH1 | GATA zinc finger protein; negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source; dimerizes with Dal80p and binds to Tor1p; GZF3 has a paralog, DAL80, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4806-YJL111W | YJL111W | CCT7 | chaperonin-containing T-complex subunit CCT7|TCP7 | Subunit of the cytosolic chaperonin Cct ring complex; related to Tcp1p, required for the assembly of actin and tubulins in vivo; mutant has increased aneuploidy tolerance | Core | NA | NA | NA |
| 4807-YJL112W | YJL112W | MDV1 | NET2|GAG3|FIS2 | Peripheral protein of cytosolic face of mitochondrial outer membrane; required for mitochondrial fission; interacts with Fis1p and with the self-assembled oligomeric form of the dynamin-related GTPase Dnm1p; contains WD repeats; MDV1 has a paralog, CAF4, that arose from the whole genome duplication | Core | NA | NA | NA |