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 |
|---|---|---|---|---|---|---|---|---|
| 7208-YOR251C | YOR251C | TUM1 | thiosulfate sulfurtransferase | Rhodanese domain sulfur transferase; accepts persulfite from Nfs1p and transfers it to Uba4p in the pathway for 2-thiolation of the wobble uridine base of tRNAs; also stimulates sulfur transfer by Nfs1p; may be mitochondrially localized | Core | NA | NA | NA |
| 7209-YOR252W | YOR252W | TMA16 | RBF17 | Protein of unknown function that associates with ribosomes | Core | NA | NA | NA |
| 7210-YOR253W | YOR253W | NAT5 | peptide alpha-N-acetyltransferase subunit NAT5|NAA50|ROG2|ARD2 | Subunit of protein N-terminal acetyltransferase NatA; NatA is comprised of Nat1p, Ard1p, and Nat5p; N-terminally acetylates many proteins, which influences multiple processes such as the cell cycle, heat-shock resistance, mating, sporulation, and telomeric silencing | Core | NA | NA | NA |
| 7211-YOR254C | YOR254C | SEC63 | protein-transporting protein SEC63|PTL1 | Essential subunit of Sec63 complex; with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER; other members are Sec62p, Sec66p, and Sec72p | Core | NA | NA | NA |
| 7212-YOR255W | YOR255W | OSW1 | NA | Protein involved in sporulation; required for the construction of the outer spore wall layers; required for proper localization of Spo14p | Core | NA | NA | NA |
| 7213-YOR256C | YOR256C | TRE2 | putative zinc metalloprotease | Transferrin receptor-like protein; functions with Tre1p to regulate ubiquitination and vacuolar degradation of the metal transporter Smf1p; inviability of null mutant in systematic studies is due to proximity to CDC31; TRE2 has a paralog, TRE1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7214-YOR257W | YOR257W | CDC31 | centrin|DSK1 | Calcium-binding component of the spindle pole body (SPB) half-bridge; required for SPB duplication in mitosis and meiosis II; homolog of mammalian centrin; binds multiubiquitinated proteins and is involved in proteasomal protein degradation | Core | NA | NA | NA |
| 7215-YOR258W | YOR258W | HNT3 | DNA 5'-adenosine monophosphate hydrolase | DNA 5' AMP hydrolase involved in DNA repair; member of the histidine triad (HIT) superfamily of nucleotide-binding proteins; homolog of Aprataxin, a Hint related protein that is mutated in individuals with ataxia with oculomotor apraxia; relative distribution to nuclear foci decreases upon DNA replication stress | Core | NA | NA | NA |
| 7216-YOR259C | YOR259C | RPT4 | proteasome regulatory particle base subunit RPT4|SUG2|PCS1|CRL13 | ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in degradation of ubiquitinated substrates; contributes preferentially to ERAD; required for spindle pole body duplication; mainly nuclear localization | Core | NA | NA | NA |
| 7217-YOR260W | YOR260W | GCD1 | translation initiation factor eIF2B subunit gamma|TRA3 | Gamma subunit of the translation initiation factor eIF2B; the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression | Core | NA | NA | NA |
| 7218-YOR261C | YOR261C | RPN8 | proteasome regulatory particle lid subunit RPN8 | Essential non-ATPase regulatory subunit of the 26S proteasome; has similarity to the human p40 proteasomal subunit and to another S. cerevisiae regulatory subunit, Rpn11p | Core | NA | NA | NA |
| 7219-YOR262W | YOR262W | GPN2 | putative GTPase GPN2 | Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn3p; highly conserved across species and homologous to human gene GPN2/ATPBD1B; required for establishment of sister chromatid cohesion | Core | NA | NA | NA |
| 7220-YOR263C | YOR263C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF DES3/YOR264W | Accessory | Ancestral | NA | NA |
| 7221-YOR264W | YOR264W | DSE3 | NA | Daughter cell-specific protein, may help establish daughter fate; relocalizes from bud neck to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7222-YOR265W | YOR265W | RBL2 | NA | Protein involved in microtubule morphogenesis; required for protection from excess free beta-tubulin; proposed to be involved the folding of beta-tubulin; similar to mouse beta-tubulin cofactor A; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |