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 |
|---|---|---|---|---|---|---|---|---|
| 5018-YJR112W | YJR112W | NNF1 | MIND complex subunit NNF1 | Essential component of the MIND kinetochore complex; joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation; complex consists of Mtw1p Including Nnf1p-Nsl1p-Dsn1p (MIND) | Core | NA | NA | NA |
| 5019-YJR112W-A | YJR112W-A | NA | NA | Putative protein of unknown function; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; identified based on homology to <i>Ashbya gossypii</i> | Core | NA | NA | NA |
| 5020-YJR113C_NumOfGenes_2 | YJR113C | RSM7 | mitochondrial 37S ribosomal protein RSM7 | Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S7 ribosomal protein | Core | NA | NA | NA |
| 5021-YJR115W | YJR115W | NA | NA | Putative protein of unknown function; YJR115W has a paralog, ECM13, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5022-YJR116W | YJR116W | TDA4 | NA | Putative protein of unknown function; null mutant is sensitive to expression of the top1-T722A allele | Core | NA | NA | NA |
| 5023-YJR117W | YJR117W | STE24 | zinc metalloprotease|PIO2|AFC1 | Highly conserved zinc metalloprotease; functions in two steps of a-factor maturation, C-terminal CAAX proteolysis and the first step of N-terminal proteolytic processing; cleaves both isoprenylated and non-prenylated oligopeptides; contains multiple transmembrane spans; human homolog ZMPSTE24 implicated in mandibuloacral dysplasia (MAD), and can complement yeast null mutant | Core | NA | NA | NA |
| 5024-YJR118C | YJR118C | ILM1 | NA | Protein of unknown function; may be involved in mitochondrial DNA maintenance; required for slowed DNA synthesis-induced filamentous growth | Core | NA | NA | NA |
| 5025-YJR119C | YJR119C | JHD2 | histone demethylase|KDM5 | JmjC domain family histone demethylase; promotes global demethylation of H3K4 and repression of noncoding intergenic transcription during sporulation; removes methyl groups added by Set1p methyltransferase; negatively regulated by H3K14 acetylation; protein levels regulated by Not4p polyubiquitin-mediated degradation; regulates sporulation timing by extending period of active transcription in opposition to programmed global transcriptional quiescence; regulates rDNA silencing | Core | NA | NA | NA |
| 5026-YJR120W | YJR120W | NA | NA | Protein of unknown function; essential for growth under anaerobic conditions; mutation causes decreased expression of ATP2, impaired respiration, defective sterol uptake, and altered levels/localization of ABC transporters Aus1p and Pdr11p | Core | NA | NA | NA |
| 5027-YJR121W | YJR121W | ATP2 | F1F0 ATP synthase subunit beta | Beta subunit of the F1 sector of mitochondrial F1F0 ATP synthase; which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; F1 translationally regulates ATP6 and ATP8 expression to achieve a balanced output of ATP synthase genes encoded in nucleus and mitochondria; phosphorylated | Accessory | Ancestral | NA | NA |
| 5028-YJR122W | YJR122W | IBA57 | CAF17 | Protein involved in incorporating iron-sulfur clusters into proteins; mitochondrial matrix protein; involved in the incorporation of iron-sulfur clusters into mitochondrial aconitase-type proteins; activates the radical-SAM family members Bio2p and Lip5p; interacts with Ccr4p in the two-hybrid system | Accessory | Ancestral | NA | NA |
| 5029-YJR123W | YJR123W | RPS5 | uS7|ribosomal 40S subunit protein S5|S7|rp14|YS8|S5|S2 | Protein component of the small (40S) ribosomal subunit; least basic of non-acidic ribosomal proteins; phosphorylated in vivo; essential for viability; homologous to mammalian ribosomal protein S5 and bacterial S7 | Core | NA | NA | NA |
| 5030-YJR124C | YJR124C | NA | NA | Putative protein of unknown function; expression induced under calcium shortage | Accessory | Ancestral | NA | NA |
| 5031-YJR125C | YJR125C | ENT3 | NA | Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p | Accessory | Ancestral | NA | NA |
| 5032-YJR126C | YJR126C | VPS70 | putative zinc metalloprotease | Protein of unknown function involved in vacuolar protein sorting; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum | Core | NA | NA | NA |