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 |
|---|---|---|---|---|---|---|---|---|
| 7328-YOR372C | YOR372C | NDD1 | NA | Transcriptional activator essential for nuclear division; localized to the nucleus; essential component of the mechanism that activates the expression of a set of late-S-phase-specific genes; turnover is tightly regulated during cell cycle and in response to DNA damage | Core | NA | NA | NA |
| 7329-YOR373W | YOR373W | NUD1 | NA | Component of the spindle pole body outer plaque; acts through the mitotic exit network to specify asymmetric spindle pole body inheritance | Core | NA | NA | NA |
| 7330-YOR374W | YOR374W | ALD4 | aldehyde dehydrogenase (NADP(+)) ALD4|ALDH2|ALD7 | Mitochondrial aldehyde dehydrogenase; required for growth on ethanol and conversion of acetaldehyde to acetate; phosphorylated; activity is K+ dependent; utilizes NADP+ or NAD+ equally as coenzymes; expression is glucose repressed; can substitute for cytosolic NADP-dependent aldehyde dehydrogenase when directed to the cytosol; human homolog ALDH2 can complement yeast ald4 mutant | Core | NA | NA | NA |
| 7331-YOR375C | YOR375C | GDH1 | glutamate dehydrogenase (NADP(+)) GDH1|DHE4|GDHA|GDH-A|URE1 | NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh3p; expression regulated by nitrogen and carbon sources; GDH1 has a paralog, GDH3, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7332-YOR376W | YOR376W | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; YOR376W is not an essential gene | Core | NA | NA | NA |
| 7333-YOR376W-A | YOR376W-A | NA | NA | Putative protein of unknown function; identified by fungal homology and RT-PCR | Core | NA | NA | NA |
| 7334-YOR377W | YOR377W | ATF1 | alcohol O-acetyltransferase | Alcohol acetyltransferase; responsible for the major part of volatile acetate ester production during fermentation; main enzyme involved in terpenyl acetate synthesis; potential roles in lipid and sterol metabolism | Core | NA | NA | NA |
| 7335-YOR378W_NumOfGenes_2 | YOR378W | AMF1 | NA | Low affinity NH4+ transporter; member of the DHA2 family of drug:H+ anti porters; putative paralog of ATR1; but not required for boron tolerance; non-essential gene | Accessory | Ancestral | NA | NA |
| 7336-YOR380W | YOR380W | RDR1 | NA | Transcriptional repressor involved in regulating multidrug resistance; negatively regulates expression of the PDR5 gene; member of the Gal4p family of zinc cluster proteins | Accessory | Ancestral | NA | NA |
| 7337-YOR381W | YOR381W | FRE3 | ferric-chelate reductase | Ferric reductase; reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels | Accessory | Ancestral | NA | NA |
| 7338-YOR381W-A | YOR381W-A | NA | NA | Putative protein of unknown function; identified by fungal homology and RT-PCR | Accessory | Unknown | NA | NA |
| 7339-YOR382W | YOR382W | FIT2 | NA | Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall | Accessory | Ancestral | NA | NA |
| 7340-YOR383C_NumOfGenes_2 | YOR383C | FIT3 | NA | Mannoprotein that is incorporated into the cell wall; incorporated via a glycosylphosphatidylinositol (GPI) anchor; involved in the retention of siderophore-iron in the cell wall | Accessory | Ancestral | NA | NA |
| 7341-YOR384W | YOR384W | FRE5 | putative ferric-chelate reductase | Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Accessory | Ancestral | NA | NA |
| 7342-YOR385W_NumOfGenes_2 | YOR385W | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YOR385W is not an essential gene | Accessory | Ancestral | NA | NA |