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 |
|---|---|---|---|---|---|---|---|---|
| 4283-YHR033W | YHR033W | NA | putative glutamate 5-kinase | Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm; YHR033W has a paralog, PRO1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4284-YHR034C | YHR034C | PIH1 | NOP17 | Component of the conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly large protein complexes such as box C/D snoRNPs and RNA polymerase II | Accessory | Ancestral | NA | NA |
| 4285-YHR035W | YHR035W | NEL1 | NA | Activator of Sar1p GTPase activity; paralog of Sec23 but does not associate with the COPII components; not an essential gene | Core | NA | NA | NA |
| 4286-YHR036W | YHR036W | BRL1 | NA | Essential nuclear envelope/ER integral membrane protein; interacts and functions with Apq12p and Brr6p in lipid homeostasis; mutants are defective in nuclear pore complex biogenesis, mRNA nuclear export and are sensitive to sterol biosynthesis inhibitors and membrane fluidizing agents; identified as a dosage suppressor of a temperature sensitive mutation in the major karyopherin, CRM1; homologous to Brr6p | Core | NA | NA | NA |
| 4287-YHR037W | YHR037W | PUT2 | 1-pyrroline-5-carboxylate dehydrogenase | Delta-1-pyrroline-5-carboxylate dehydrogenase; nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; deficiency of human homolog ALDH4A1 causes type II hyperprolinemia (HPII), an autosomal recessive inborn error of metabolism; human homolog ALDH4A1 can complement yeast null mutant | Core | NA | NA | NA |
| 4288-YHR038W | YHR038W | RRF1 | FIL1|KIM4 | Mitochondrial ribosome recycling factor; essential for mitochondrial protein synthesis and for the maintenance of the respiratory function of mitochondria | Core | NA | NA | NA |
| 4289-YHR039C | YHR039C | MSC7 | meiotic recombination directing protein | Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; msc7 mutants are defective in directing meiotic recombination events to homologous chromatids | Core | NA | NA | NA |
| 4290-YHR039C-A | YHR039C-A | VMA10 | H(+)-transporting V1 sector ATPase subunit G|YHR039BC|YHR039C-B | Subunit G of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; involved in vacuolar acidification; the V1 peripheral membrane domain of the vacuolar H+-ATPase (V-ATPase) has eight subunits | Core | NA | NA | NA |
| 4291-YHR040W | YHR040W | BCD1 | NA | Essential protein required for the accumulation of box C/D snoRNA | Core | NA | NA | NA |
| 4292-YHR041C | YHR041C | SRB2 | MED20|HRS2 | Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; general transcription factor involved in telomere maintenance | Core | NA | NA | NA |
| 4293-YHR042W | YHR042W | NCP1 | CPR1 | NADP-cytochrome P450 reductase; involved in ergosterol biosynthesis; associated and coordinately regulated with Erg11p | Core | NA | NA | NA |
| 4294-YHR043C | YHR043C | DOG2 | 2-deoxyglucose-6-phosphatase | 2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases, induced by oxidative and osmotic stress, confers 2-deoxyglucose resistance when overexpressed; DOG2 has a paralog, DOG1, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae | Accessory | Ancestral | NA | NA |
| 4295-YHR044C | YHR044C | DOG1 | 2-deoxyglucose-6-phosphatase | 2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases; confers 2-deoxyglucose resistance when overexpressed; DOG1 has a paralog, DOG2, that arose from a single-locus duplication; the last half of DOG1 and DOG2 are subject to gene conversions among S. cerevisiae, S. paradoxus, and S. mikatae | Accessory | Ancestral | NA | NA |
| 4296-YHR045W | YHR045W | NA | NA | Putative protein of unknown function; possible role in iron metabolism and/or amino acid and carbohydrate metabolism; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum | Core | NA | NA | NA |
| 4297-YHR046C | YHR046C | INM1 | inositol monophosphate 1-phosphatase INM1 | Inositol monophosphatase; involved in biosynthesis of inositol and in phosphoinositide second messenger signaling; INM1 expression increases in the presence of inositol and decreases upon exposure to antibipolar drugs lithium and valproate | Core | NA | NA | NA |