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 |
|---|---|---|---|---|---|---|---|---|
| 3773-YGL129C | YGL129C | RSM23 | mitochondrial 37S ribosomal protein RSM23 | Mitochondrial ribosomal protein of the small subunit; has similarity to mammalian apoptosis mediator proteins; null mutation prevents induction of apoptosis by overproduction of metacaspase Mca1p | Core | NA | NA | NA |
| 3774-YGL130W | YGL130W | CEG1 | mRNA guanylyltransferase | Guanylyltransferase involved in mRNA 5' capping; subunit of mRNA capping enzyme, which is a heterotetramer composed of two molecules of Ceg1p and a homodimer of Cet1p, the mRNA 5'-triphosphatase subunit; nuclear import of Ceg1p requires interaction with Cet1p; mammalian capping enzyme is a single bifunctional polypeptide; human homolog RNGTT can complement yeast ceg1 null mutant | Core | NA | NA | NA |
| 3775-YGL131C_NumOfGenes_2 | YGL131C | SNT2 | DNA-binding E3 ubiquitin-protein ligase SNT2 | Subunit of Snt2C complex, RING finger ubiquitin ligase (E3); physically associates with Ecm5p and Rpd3p; along with Ecm5p, recruits Rpd3p to small number of promoters; colocalizes with Ecm5p, independently of Rpd3p, to promoters of stress response genes upon oxidative stress; involved in ubiquitination, degradation of excess histones; interacts with Ubc4p; role in regulating genes encoding amine transporters; relocalizes from nucleus to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 3776-YGL133W | YGL133W | ITC1 | NA | Subunit of ATP-dependent Isw2p-Itc1p chromatin remodeling complex; required for repression of a-specific genes, repression of early meiotic genes during mitotic growth, and repression of INO1; similar to mammalian Acf1p, the regulatory subunit of the mammalian ATP-utilizing chromatin assembly and modifying factor (ACF) complex; ITC1 has a paralog, YPL216W, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3777-YGL134W | YGL134W | PCL10 | NA | Pho85p cyclin; recruits, activates, and targets Pho85p cyclin-dependent protein kinase to its substrate; PCL10 has a paralog, PCL8, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3778-YGL135W_NumOfGenes_2 | YGL135W | RPL1B | uL1|ribosomal 60S subunit protein L1B|L1|L1B|SSM2 | Ribosomal 60S subunit protein L1B; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1B has a paralog, RPL1A, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal | Core | NA | NA | NA |
| 3779-YGL136C | YGL136C | MRM2 | 21S rRNA (uridine2791-2'-O) methyltransferase | Mitochondrial 2' O-ribose methyltransferase; required for methylation of U(2791) in 21S rRNA; MRM2 deletion confers thermosensitive respiration and loss of mitochondrial DNA; has similarity to Spb1p and Trm7p, and to E. coli FtsJ/RrmJ | Core | NA | NA | NA |
| 3780-YGL137W | YGL137W | SEC27 | coatomer subunit beta' | Essential beta'-coat protein of the COPI coatomer; involved in ER-to-Golgi and Golgi-to-ER transport; contains WD40 domains that mediate cargo selective interactions; 45% sequence identity to mammalian beta'-COP | Core | NA | NA | NA |
| 3781-YGL138C | YGL138C | NA | NA | Putative protein of unknown function; has no significant sequence similarity to any known protein | Core | NA | NA | NA |
| 3782-YGL139W | YGL139W | FLC3 | putative flavin adenine dinucleotide transporter|HUF3 | Putative FAD transporter, similar to Flc1p and Flc2p; localized to the ER; FLC3 has a paralog, FLC1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3783-YGL140C | YGL140C | NA | NA | Putative protein of unknown function; non-essential gene; contains multiple predicted transmembrane domains | Core | NA | NA | NA |
| 3784-YGL141W | YGL141W | HUL5 | ubiquitin-ubiquitin ligase HUL5 | Multiubiquitin chain assembly factor (E4); proteasome processivity factor that elongates polyUb chains on substrates, opposing Ubp6p, a branched polyubiquitin protease; required for retrograde transport of misfolded proteins during ERAD; required for ubiquitination of a subset of cytosolic misfolded proteins upon heat shock | Core | NA | NA | NA |
| 3785-YGL142C | YGL142C | GPI10 | putative glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase | Integral membrane protein involved in GPI anchor synthesis; putative alpha 1,2 mannosyltransferase required for addition of the third mannose onto the glycosylphosphatidylinositol (GPI) core structure; human PIG-Bp is a functional homolog | Core | NA | NA | NA |
| 3786-YGL143C | YGL143C | MRF1 | NA | Mitochondrial translation release factor; involved in stop codon recognition and hydrolysis of the peptidyl-tRNA bond during mitochondrial translation; lack of MRF1 causes mitochondrial genome instability | Core | NA | NA | NA |
| 3787-YGL144C | YGL144C | ROG1 | putative lipase ROG1 | Lipase with specificity for monoacylglycerol; preferred substrate is 1-oleoylglycerol; null mutation affects lipid droplet morphology and overexpression causes increased accumulation of reactive oxygen species | Core | NA | NA | NA |