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 |
|---|---|---|---|---|---|---|---|---|
| 3233-YEL001C | YEL001C | IRC22 | NA | Protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; YEL001C is non-essential; null mutant displays increased levels of spontaneous Rad52p foci | Core | NA | NA | NA |
| 3234-YEL002C | YEL002C | WBP1 | dolichyl-diphosphooligosaccharide-protein glycotransferase | Beta subunit of the oligosaccharyl transferase glycoprotein complex; required for N-linked glycosylation of proteins in the endoplasmic reticulum; human homolog DDOST can complement yeast growth defect during down-regulation of yeast gene | Core | NA | NA | NA |
| 3235-YEL003W | YEL003W | GIM4 | tubulin-binding prefolding complex subunit GIM4|PFD2 | Subunit of the heterohexameric cochaperone prefoldin complex; complex binds specifically to cytosolic chaperonin and transfers target proteins to it | Core | NA | NA | NA |
| 3236-YEL004W | YEL004W | YEA4 | NA | Uridine diphosphate-N-acetylglucosamine (UDP-GlcNAc) transporter; required for cell wall chitin synthesis; localized to the ER | Core | NA | NA | NA |
| 3237-YEL005C | YEL005C | VAB2 | VAB31 | Subunit of the BLOC-1 complex involved in endosomal maturation; interacts with Vps21p-GFP; has potential role in vacuolar function, as suggested by its ability to bind Vac8p; likely member of; Vab2p-GFP-fusion localizes to cytoplasm in punctate pattern | Core | NA | NA | NA |
| 3238-YEL006W | YEL006W | YEA6 | NAD+ transporter|NDT2 | Putative mitochondrial NAD+ transporter; member of the mitochondrial carrier subfamily (see also YIA6); has putative human ortholog; YEA6 has a paralog, YIA6, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3239-YEL007W | YEL007W | MIT1 | TOS9 | Transcriptional regulator of pseudohyphal growth; protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1) and C. albicans Wor1 | Core | NA | NA | NA |
| 3240-YEL008W_NumOfGenes_2 | YEL008W | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; YEL008W is not an essential gene; predicted to be involved in metabolism | Core | NA | NA | NA |
| 3241-YEL009C | YEL009C | GCN4 | amino acid starvation-responsive transcription factor GCN4|AAS101|ARG9|AAS3 | bZIP transcriptional activator of amino acid biosynthetic genes; activator responds to amino acid starvation; expression is tightly regulated at both the transcriptional and translational levels | Core | NA | NA | NA |
| 3242-YEL009C-A | YEL009C-A | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; overlaps ORF YEL010W | Accessory | Unknown | NA | NA |
| 3243-YEL010W | YEL010W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Unknown | NA | NA |
| 3244-YEL011W | YEL011W | GLC3 | 1,4-alpha-glucan branching enzyme|GHA1 | Glycogen branching enzyme, involved in glycogen accumulation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress; glycogen accumulation defect of the null mutant is functionally complemented by human GBE1, which is associated with glycogen storage disease | Core | NA | NA | NA |
| 3245-YEL012W | YEL012W | UBC8 | E2 ubiquitin-conjugating protein UBC8|GID3 | Ubiquitin-conjugating enzyme that regulates gluconeogenesis; negatively regulates gluconeogenesis by mediating the glucose-induced ubiquitination of fructose-1,6-bisphosphatase (FBPase); cytoplasmic enzyme that catalyzes the ubiquitination of histones in vitro | Core | NA | NA | NA |
| 3246-YEL013W | YEL013W | VAC8 | protein anchor VAC8|YEB3 | Phosphorylated and palmitoylated vacuolar membrane protein; interacts with Atg13p, required for the cytoplasm-to-vacuole targeting (Cvt) pathway; interacts with Nvj1p to form nucleus-vacuole junctions | Core | NA | NA | NA |
| 3247-YEL014C | YEL014C | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains | Core | NA | NA | NA |