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 |
|---|---|---|---|---|---|---|---|---|
| 2963-YDR273W | YDR273W | DON1 | NA | Meiosis-specific component of the spindle pole body; subunit of the leading edge protein (LEP) complex (Ssp1-Ady3-Don1-Irc10) that forms a ring-like structure at the leading edge of the prospore membrane (PSM) during meiosis II; required for PSM growth and closure; DON1 has a paralog, CUE5, that arose from the whole genome | Core | NA | NA | NA |
| 2964-YDR274C | YDR274C | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; YDR274C is not an essential gene | Core | NA | NA | NA |
| 2965-YDR275W | YDR275W | BSC2 | NA | Protein of unknown function; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; null mutant displays increased translation rate and increased readthrough of premature stop codons; BSC2 has a paralog, IRC23, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2966-YDR276C | YDR276C | PMP3 | SNA1 | Small plasma membrane protein; confers resistance to amphotericin B and is a potential target of this common antifungal drug; related to a family of plant polypeptides that are overexpressed under high salt concentration or low temperature; not essential for viability; deletion causes hyperpolarization of the plasma membrane potential | Core | NA | NA | NA |
| 2967-YDR277C | YDR277C | MTH1 | HTR1|DGT1|BPC1 | Negative regulator of the glucose-sensing signal transduction pathway; required for repression of transcription by Rgt1p; interacts with Rgt1p and the Snf3p and Rgt2p glucose sensors; phosphorylated by Yck1p, triggering Mth1p degradation; MTH1 has a paralog, STD1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2968-YDR278C | YDR278C | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; YDR278C is not an essential gene | Core | NA | NA | NA |
| 2969-YDR279W | YDR279W | RNH202 | Rnh2B | Ribonuclease H2 subunit; required for RNase H2 activity; role in ribonucleotide excision repair; related to human AGS2 that causes Aicardi-Goutieres syndrome | Core | NA | NA | NA |
| 2970-YDR280W | YDR280W | RRP45 | exosome non-catalytic core subunit RRP45 | Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp45p (PM/SCL-75, EXOSC9); protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 2971-YDR281C | YDR281C | PHM6 | NA | Protein of unknown function; expression is regulated by phosphate levels | Core | NA | NA | NA |
| 2972-YDR282C | YDR282C | MRX10 | NA | Mitochondrial inner membrane protein of unknown function; associates with mitochondrial ribosome; localizes to the inner membrane with the C terminus facing the intermembrane space; ortholog of human RMND1, mutation in which is implicated in infantile encephaloneuromyopathy and defective mitochondrial translation | Core | NA | NA | NA |
| 2973-YDR283C | YDR283C | GCN2 | serine/threonine-protein kinase GCN2|AAS102|NDR2|AAS1 | Protein kinase; phosphorylates the alpha-subunit of translation initiation factor eIF2 (Sui2p) in response to starvation; activated by uncharged tRNAs and the Gcn1p-Gcn20p complex; contributes to DNA damage checkpoint control | Core | NA | NA | NA |
| 2974-YDR284C | YDR284C | DPP1 | bifunctional diacylglycerol diphosphate phosphatase/phosphatidate phosphatase|ZRG1 | Diacylglycerol pyrophosphate (DGPP) phosphatase; zinc-regulated vacuolar membrane-associated lipid phosphatase, dephosphorylates DGPP to phosphatidate (PA) and Pi, then PA to diacylglycerol; involved in lipid signaling and cell metabolism | Core | NA | NA | NA |
| 2975-YDR285W | YDR285W | ZIP1 | NA | Transverse filament protein of the synaptonemal complex; required for normal levels of meiotic recombination and pairing between homologous chromosome during meiosis; required for meiotic recombination between non-allelc sites; potential Cdc28p substrate | Core | NA | NA | NA |
| 2976-YDR286C | YDR286C | NA | NA | Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site | Core | NA | NA | NA |
| 2977-YDR287W | YDR287W | INM2 | inositol monophosphate 1-phosphatase INM2 | Inositol monophosphatase; involved in biosynthesis of inositol; enzymatic activity requires magnesium ions and is inhibited by lithium and sodium ions; inm1 inm2 double mutant lacks inositol auxotrophy | Core | NA | NA | NA |