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 |
|---|---|---|---|---|---|---|---|---|
| 5168-YKL096C-B | YKL096C-B | NA | NA | Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Accessory | Unknown | NA | NA |
| 5169-YKL096W | YKL096W | CWP1 | YJU1 | Cell wall mannoprotein that localizes to birth scars of daughter cells; linked to a beta-1,3- and beta-1,6-glucan heteropolymer through a phosphodiester bond; required for propionic acid resistance | Accessory | Ancestral | NA | NA |
| 5170-YKL096W-A | YKL096W-A | CWP2 | YKL097W-A|LPR1 | Covalently linked cell wall mannoprotein; major constituent of the cell wall; plays a role in stabilizing the cell wall; involved in low pH resistance; precursor is GPI-anchored | Accessory | Ancestral | NA | NA |
| 5171-YKL097C | YKL097C | NA | NA | Putative protein of unknown function; conserved across S. cerevisiae strains; not conserved in closely related Saccharomyces species | Core | NA | NA | NA |
| 5172-YKL098W | YKL098W | MTC2 | NA | Protein of unknown function; mtc2 is synthetically sick with cdc13-1 | Core | NA | NA | NA |
| 5173-YKL099C | YKL099C | UTP11 | rRNA-processing protein UTP11 | Subunit of U3-containing Small Subunit (SSU) processome complex; involved in production of 18S rRNA and assembly of small ribosomal subunit | Core | NA | NA | NA |
| 5174-YKL100C_NumOfGenes_2 | YKL100C | YPF1 | aspartic endopeptidase | Intramembrane aspartyl protease of the perinuclear ER membrane; acts in a branch of ER-associated degradation (ERAD) that degrades functional proteins rather than misfolded proteins; regulates abundance of high-affinity plasma membrane transporters, such as Ctr1p and Zrt1p, during the starvation response; has a presenilin fold; member of the GxGD family of intramembrane proteases; closest human homolog is signal peptide peptidase (SPP) | Core | NA | NA | NA |
| 5175-YKL101W | YKL101W | HSL1 | protein kinase HSL1|ELM2|NIK1 | Nim1p-related protein kinase; septin-binding kinase that localizes to the bud neck septin ring and regulates the morphogenesis checkpoint; phosphorylates Hsl7p and cooperates with Elm1p to recruit Hsl7p to the mother-bud neck, as a prerequisite for the subsequent recruitment, phosphorylation, and degradation of Swe1p; autophosphorylation enhances interactions with Hsl7p | Core | NA | NA | NA |
| 5176-YKL102C | YKL102C | NA | NA | Putative protein of unknown function; conserved across S. cerevisiae strains; deletion confers sensitivity to citric acid; predicted protein would include a thiol-disulfide oxidoreductase active site | Core | NA | NA | NA |
| 5177-YKL103C | YKL103C | APE1 | metalloaminopeptidase APE1|LAP4|API|YSC1 | Vacuolar aminopeptidase yscI; zinc metalloproteinase that belongs to the peptidase family M18; often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway; protein increases in abundance and relative distribution to cytoplasmic foci increases upon DNA replication stress | Core | NA | NA | NA |
| 5178-YKL104C | YKL104C | GFA1 | glutamine--fructose-6-phosphate transaminase (isomerizing) GFA1 | Glutamine-fructose-6-phosphate amidotransferase; catalyzes the formation of glucosamine-6-P and glutamate from fructose-6-P and glutamine in the first step of chitin biosynthesis; GFA1 has a paralogous region, comprising ORFs YMR084W-YMR085W, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5179-YKL105C | YKL105C | SEG2 | NA | Eisosome component; likely plays only a minor role in eisosome assembly; shown to interact with Seg1p by affinity purification and mass spec; SWAT-GFP and mCherry fusion proteins localize to the cell periphery; similar to <i>A. gossypii</i> SEG gene which is important for stabilizing eisosomes; SEG2 has a paralog, SEG1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5180-YKL106C-A | YKL106C-A | NA | NA | Putative protein of unknown function; identified by homology to uncharacterized proteins in other fungi | Core | NA | NA | NA |
| 5181-YKL106W | YKL106W | AAT1 | aspartate transaminase AAT1 | Mitochondrial aspartate aminotransferase; catalyzes the conversion of oxaloacetate to aspartate in aspartate and asparagine biosynthesis | Core | NA | NA | NA |
| 5182-YKL107W | YKL107W | NA | putative short-chain dehydrogenase/reductase | Putative short-chain dehydrogenase/reductase; proposed to be a palmitoylated membrane protein | Core | NA | NA | NA |