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 |
|---|---|---|---|---|---|---|---|---|
| 2723-YDR033W | YDR033W | MRH1 | NA | Protein that localizes primarily to the plasma membrane; also found at the nuclear envelope; long-lived protein that is asymmetrically retained in the plasma membrane of mother cells; the authentic, non-tagged protein is detected in mitochondria in a phosphorylated state; null mutation confers sensitivity to acetic acid | Core | NA | NA | NA |
| 2724-YDR034C | YDR034C | LYS14 | NA | Transcriptional activator involved in regulating lysine biosynthesis; involved in the regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer | Accessory | Ancestral | NA | NA |
| 2725-YDR034C-A | YDR034C-A | NA | NA | Putative protein of unknown function; contained within the solo Ty1 LTR element YDRWdelta7 | Accessory | Unknown | S. paradoxus | NA |
| 2726-YDR034W-B | YDR034W-B | NA | NA | Predicted tail-anchored plasma membrane protein; contains conserved CYSTM module; related proteins in other organisms may be involved in response to stress; N- and C-terminal fusion proteins localize to the cell periphery; YDR034W-B has a paralog, YBR056W-A, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2727-YDR035W_NumOfGenes_2 | YDR035W | ARO3 | 3-deoxy-7-phosphoheptulonate synthase ARO3 | 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase; catalyzes the first step in aromatic amino acid biosynthesis and is feedback-inhibited by phenylalanine or high concentration of tyrosine or tryptophan | Core | NA | NA | NA |
| 2728-YDR036C | YDR036C | EHD3 | MRP5 | 3-hydroxyisobutyryl-CoA hydrolase; member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis | Accessory | Introgression | S. paradoxus | NA |
| 2729-YDR037W | YDR037W | KRS1 | lysine--tRNA ligase KRS1|GCD5 | Lysyl-tRNA synthetase | Accessory | Introgression | S. paradoxus | NA |
| 2730-YDR038C_NumOfGenes_3 | YDR038C | ENA5 | putative Na(+)-exporting P-type ATPase ENA5 | Protein with similarity to P-type ATPase sodium pumps; member of the Na+ efflux ATPase family | Accessory | Introgression | S. paradoxus | NA |
| 2731-YDR041W | YDR041W | RSM10 | mitochondrial 37S ribosomal protein RSM10 | Mitochondrial ribosomal protein of the small subunit; has similarity to E. coli S10 ribosomal protein; essential for viability, unlike most other mitoribosomal proteins | Core | NA | NA | NA |
| 2732-YDR042C | YDR042C | NA | NA | Putative protein of unknown function; expression is increased in ssu72-ts69 mutant | Core | NA | NA | NA |
| 2733-YDR043C | YDR043C | NRG1 | transcriptional regulator NRG1 | Transcriptional repressor; recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a variety of processes including filamentous growth and alkaline pH response; activated in stochastic pulses of nuclear localization in response to low glucose | Core | NA | NA | NA |
| 2734-YDR044W | YDR044W | HEM13 | coproporphyrinogen oxidase | Coproporphyrinogen III oxidase; oxygen-requiring enzyme that catalyzes sixth step in heme biosynthetic pathway; transcription is repressed by oxygen and heme (via Rox1p and Hap1p); human homolog CPOX can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid | Core | NA | NA | NA |
| 2735-YDR045C_NumOfGenes_2 | YDR045C | RPC11 | DNA-directed RNA polymerase III core subunit RPC11|C11 | RNA polymerase III subunit C11; mediates pol III RNA cleavage activity and is important for termination of transcription; homologous to TFIIS | Core | NA | NA | NA |
| 2736-YDR046C_NumOfGenes_2 | YDR046C | BAP3 | amino acid transporter BAP3|PAP1 | Amino acid permease; involved in uptake of cysteine, leucine, isoleucine and valine; BAP3 has a paralog, BAP2, that arose from the whole genome duplication | Accessory | Ancestral | NA | NA |
| 2737-YDR047W_NumOfGenes_2 | YDR047W | HEM12 | uroporphyrinogen decarboxylase HEM12|HEM6 | Uroporphyrinogen decarboxylase; catalyzes the fifth step in the heme biosynthetic pathway; localizes to both the cytoplasm and nucleus; a hem12 mutant has phenotypes similar to patients with porphyria cutanea tarda | Core | NA | NA | NA |