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 |
|---|---|---|---|---|---|---|---|---|
| 7238-YOR282W | YOR282W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps essential, verified gene PLP2/YOR281C | Core | NA | NA | NA |
| 7239-YOR283W | YOR283W | NA | phosphoglycerate mutase | Phosphatase with a broad substrate specificity; has some similarity to GPM1/YKL152C, a phosphoglycerate mutase; YOR283W is not an essential gene | Core | NA | NA | NA |
| 7240-YOR284W | YOR284W | HUA2 | NA | Cytoplasmic protein of unknown function; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly | Core | NA | NA | NA |
| 7241-YOR285W | YOR285W | RDL1 | thiosulfate sulfurtransferase RDL1 | Thiosulfate sulfurtransferase; contains a rhodanese-like domain; localized to the mitochondrial outer membrane; protein abundance increases in response to DNA replication stress; similar to the human TSTD gene | Core | NA | NA | NA |
| 7242-YOR286W | YOR286W | RDL2 | thiosulfate sulfurtransferase RDL2|AIM42|FMP31 | Protein with rhodanese activity; contains a rhodanese-like domain similar to Rdl1p, Uba4p, Tum1p, and Ych1p; overexpression causes a cell cycle delay; null mutant displays elevated frequency of mitochondrial genome loss | Core | NA | NA | NA |
| 7243-YOR287C | YOR287C | RRP36 | rRNA-processing protein RRP36 | Component of 90S preribosomes; involved in early cleavages of the 35S pre-rRNA and in production of the 40S ribosomal subunit | Core | NA | NA | NA |
| 7244-YOR288C | YOR288C | MPD1 | protein disulfide isomerase MPD1 | Member of the protein disulfide isomerase (PDI) family; interacts with and inhibits the chaperone activity of Cne1p; MPD1 overexpression in a pdi1 null mutant suppresses defects in Pdi1p functions such as carboxypeptidase Y maturation | Core | NA | NA | NA |
| 7245-YOR289W | YOR289W | NA | NA | Putative protein of unknown function; transcription induced by the unfolded protein response; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus | Core | NA | NA | NA |
| 7246-YOR290C | YOR290C | SNF2 | SWI/SNF catalytic subunit SNF2|TYE3|SWI2|HAF1|GAM1 | Catalytic subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; contains DNA-stimulated ATPase activity; functions interdependently in transcriptional activation with Snf5p and Snf6p | Core | NA | NA | NA |
| 7247-YOR291W | YOR291W | YPK9 | putative acid anhydride hydrolase | Vacuolar protein with a possible role in sequestering heavy metals; has similarity to the type V P-type ATPase Spf1p; homolog of human ATP13A2 (PARK9), mutations in which are associated with Parkinson disease and Kufor-Rakeb syndrome | Core | NA | NA | NA |
| 7248-YOR292C | YOR292C | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YOR292C is not an essential gene | Core | NA | NA | NA |
| 7249-YOR293C-A | YOR293C-A | NA | NA | Putative protein of unknown function; identified by expression profiling and mass spectrometry | Accessory | Unknown | NA | NA |
| 7250-YOR293W | YOR293W | RPS10A | eS10|ribosomal 40S subunit protein S10A|S10e|S10A | Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S10, no bacterial homolog; RPS10A has a paralog, RPS10B, that arose from the whole genome duplication; mutations in the human homolog associated with Diamond-Blackfan anemia | Core | NA | NA | NA |
| 7251-YOR294W | YOR294W | RRS1 | NA | Essential protein that binds ribosomal protein L11; required for nuclear export of the 60S pre-ribosomal subunit during ribosome biogenesis; localizes to the nucleolus and in foci along nuclear periphery; cooperates with Ebp2p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering; mouse homolog shows altered expression in Huntington's disease model mice | Core | NA | NA | NA |
| 7252-YOR295W | YOR295W | UAF30 | NA | Subunit of UAF (upstream activation factor) complex; UAF is an RNA polymerase I specific transcription stimulatory factor composed of Uaf30p, Rrn5p, Rrn9p, Rrn10p, histones H3 and H4; targeting factor for the UAF that facilitates activation of many rDNA genes; deletion decreases cellular growth rate; UAF30 has a paralog, TRI1, that arose from the whole genome duplication | Core | NA | NA | NA |