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 |
|---|---|---|---|---|---|---|---|---|
| 7568-YPL219W | YPL219W | PCL8 | NA | Cyclin; interacts with Pho85p cyclin-dependent kinase (Cdk) to phosphorylate and regulate glycogen synthase, also activates Pho85p for Glc8p phosphorylation; PCL8 has a paralog, PCL10, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7569-YPL221W | YPL221W | FLC1 | flavin adenine dinucleotide transporter|BOP1|HUF1 | Flavin adenine dinucleotide transporter; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance; FLC1 has a paralog, FLC3, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7570-YPL222W_NumOfGenes_2 | YPL222W | FMP40 | NA | Putative protein of unknown function; proposed to be involved in responding to environmental stresses; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |
| 7571-YPL223C | YPL223C | GRE1 | NA | Hydrophilin essential in desiccation-rehydration process; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway; GRE1 has a paralog, SIP18, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7572-YPL224C | YPL224C | MMT2 | MFT2 | Putative metal transporter involved in mitochondrial iron accumulation; MMT2 has a paralog, MMT1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7573-YPL225W | YPL225W | NA | NA | Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 7574-YPL226W | YPL226W | NEW1 | NA | ATP binding cassette protein; cosediments with polysomes and is required for biogenesis of the small ribosomal subunit; Asn/Gln-rich rich region supports [NU+] prion formation and susceptibility to [PSI+] prion induction | Core | NA | NA | NA |
| 7575-YPL227C | YPL227C | ALG5 | dolichyl-phosphate beta-glucosyltransferase | UDP-glucose:dolichyl-phosphate glucosyltransferase; involved in asparagine-linked glycosylation in the endoplasmic reticulum; human ortholog ALG5 can partially complement yeast alg5 mutant | Core | NA | NA | NA |
| 7576-YPL228W | YPL228W | CET1 | polynucleotide 5'-phosphatase|CES5 | RNA 5'-triphosphatase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of a Cet1p homodimer and two molecules of guanylyltransferase Ceg1p; Cet1p also has a role in regulation of RNAPII pausing at promoter-proximal sites; interaction between Cet1p and Ceg1p is required for Ceg1p nuclear import; mammalian enzyme is single bifunctional polypeptide; human homolog RNGTT can complement yeast cet1 null mutant | Core | NA | NA | NA |
| 7577-YPL229W | YPL229W | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; not an essential gene; YPL229W has a paralog, YMR181C, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7578-YPL230W | YPL230W | USV1 | NSF1 | Putative transcription factor containing a C2H2 zinc finger; mutation affects transcriptional regulation of genes involved in growth on non-fermentable carbon sources, response to salt stress and cell wall biosynthesis; USV1 has a paralog, RGM1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7579-YPL231W | YPL231W | FAS2 | trifunctional fatty acid synthase subunit FAS2 | Alpha subunit of fatty acid synthetase; complex catalyzes the synthesis of long-chain saturated fatty acids; contains the acyl-carrier protein domain and beta-ketoacyl reductase, beta-ketoacyl synthase and self-pantetheinylation activities | Core | NA | NA | NA |
| 7580-YPL232W | YPL232W | SSO1 | syntaxin | Plasma membrane t-SNARE; involved in fusion of secretory vesicles at the plasma membrane and in vesicle fusion during sporulation; forms a complex with Sec9p that binds v-SNARE Snc2p; syntaxin homolog; functionally redundant with Sso2p; SSO1 has a paralog, SSO2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7581-YPL233W | YPL233W | NSL1 | MIND complex subunit NSL1 | Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND) | Core | NA | NA | NA |
| 7582-YPL234C | YPL234C | VMA11 | H(+)-transporting V0 sector ATPase subunit c'|TFP3|CLS9 | Vacuolar ATPase V0 domain subunit c'; involved in proton transport activity; hydrophobic integral membrane protein (proteolipid) containing four transmembrane segments; N and C termini are in the vacuolar lumen | Core | NA | NA | NA |