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 |
|---|---|---|---|---|---|---|---|---|
| 6278-YMR211W | YMR211W | DML1 | NA | Essential protein involved in mtDNA inheritance; may also function in the partitioning of the mitochondrial organelle or in the segregation of chromosomes, exhibits regions similar to members of a GTPase family | Core | NA | NA | NA |
| 6279-YMR212C | YMR212C | EFR3 | NA | Protein required for Stt4-containing PI kinase complex localization; required for Stt4-containing phosphoinositide (PI) kinase patch assembly at the plasma membrane; recruited to the plasma membrane via a conserved basic patch near its N-terminus; exhibits synthetic lethal genetic interactions with PHO85; has sequence similarity to the Drosophila rolling blackout (RBO) gene | Core | NA | NA | NA |
| 6280-YMR213W | YMR213W | CEF1 | NTC85 | Essential splicing factor; associated with Prp19p and the spliceosome, contains an N-terminal c-Myb DNA binding motif necessary for cell viability but not for Prp19p association, evolutionarily conserved and homologous to S. pombe Cdc5p | Core | NA | NA | NA |
| 6281-YMR214W | YMR214W | SCJ1 | NA | One of several homologs of bacterial chaperone DnaJ; located in the ER lumen where it cooperates with Kar2p to mediate maturation of proteins | Core | NA | NA | NA |
| 6282-YMR215W | YMR215W | GAS3 | putative 1,3-beta-glucanosyltransferase | Putative 1,3-beta-glucanosyltransferase; has similarity go other GAS family members; low abundance, possibly inactive member of the GAS family of GPI-containing proteins; localizes to the cell wall; mRNA induced during sporulation | Accessory | Ancestral | NA | NA |
| 6283-YMR216C | YMR216C | SKY1 | serine/threonine protein kinase SKY1 | SR protein kinase (SRPK); involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1 | Accessory | Ancestral | NA | NA |
| 6284-YMR217W | YMR217W | GUA1 | GMP synthase (glutamine-hydrolyzing) | GMP synthase; highly conserved enzyme that catalyzes the second step in the biosynthesis of GMP from inosine 5'-phosphate (IMP); transcription is not subject to regulation by guanine but is negatively regulated by nutrient starvation; reduction-of-function mutation gua1-G388D causes changes in cellular guanine nucleotide pools, defects in general protein synthesis, and impaired translation of GCN4 mRNA | Core | NA | NA | NA |
| 6285-YMR218C | YMR218C | TRS130 | transport protein particle complex II subunit TRS130 | Component of transport protein particle (TRAPP) complex II; TRAPPII is a multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating intra-Golgi and endosome-Golgi traffic | Core | NA | NA | NA |
| 6286-YMR219W | YMR219W | ESC1 | NA | Protein involved in telomeric silencing; required for quiescent cell telomere hypercluster localization at nuclear membrane vicinity; interacts with PAD4-domain of Sir4p | Core | NA | NA | NA |
| 6287-YMR220W | YMR220W | ERG8 | phosphomevalonate kinase | Phosphomevalonate kinase; an essential cytosolic enzyme that acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate | Core | NA | NA | NA |
| 6288-YMR221C | YMR221C | FMP42 | NA | Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; physical interaction with Atg27p suggests a possible role in autophagy | Core | NA | NA | NA |
| 6289-YMR222C | YMR222C | FSH2 | putative serine hydrolase | Putative serine hydrolase that localizes to the cytoplasm; sequence is similar to S. cerevisiae Fsh1p and Fsh3p and the human candidate tumor suppressor OVCA2 | Core | NA | NA | NA |
| 6290-YMR223W | YMR223W | UBP8 | ubiquitin-specific protease UBP8 | Ubiquitin-specific protease component of the SAGA acetylation complex; required for SAGA (Spt-Ada-Gcn5-Acetyltransferase)-mediated deubiquitination of histone H2B | Core | NA | NA | NA |
| 6291-YMR224C | YMR224C | MRE11 | MRX complex nuclease subunit|NGS1|XRS4|RAD58 | Nuclease subunit of the MRX complex with Rad50p and Xrs2p; complex functions in repair of DNA double-strand breaks and in telomere stability; Mre11p associates with Ser/Thr-rich ORFs in premeiotic phase; nuclease activity required for MRX function; widely conserved; forms nuclear foci upon DNA replication stress | Core | NA | NA | NA |
| 6292-YMR225C | YMR225C | MRPL44 | mitochondrial 54S ribosomal protein YmL44|YmL44|YMR44 | Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |