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 |
|---|---|---|---|---|---|---|---|---|
| 7733-YPR112C | YPR112C | MRD1 | RNA-binding ribosome biosynthesis protein MRD1 | Essential conserved small ribosomal subunit (40s) synthesis factor; component of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains and binds to the pre-rRNA at two sites within the 18S region | Core | NA | NA | NA |
| 7734-YPR113W | YPR113W | PIS1 | CDP-diacylglycerol--inositol 3-phosphatidyltransferase | Phosphatidylinositol synthase; required for biosynthesis of phosphatidylinositol, which is a precursor for polyphosphoinositides, sphingolipids, and glycolipid anchors for some of the plasma membrane proteins | Core | NA | NA | NA |
| 7735-YPR114W | YPR114W | NA | NA | Putative protein of unknown function | Core | NA | NA | NA |
| 7736-YPR115W | YPR115W | RGC1 | GCA1 | Putative regulator of the Fps1p glycerol channel; multiply phosphorylated by Hog1p under osmotic stress; contains a pleckstrin homology domain; forms homodimers and heterodimerizes with paralog Ask10p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm | Core | NA | NA | NA |
| 7737-YPR116W | YPR116W | RRG8 | NA | Protein of unknown function; required for mitochondrial genome maintenance; null mutation results in a decrease in plasma membrane electron transport | Core | NA | NA | NA |
| 7738-YPR117W | YPR117W | NA | BSH1 | Putative protein of unknown function | Core | NA | NA | NA |
| 7739-YPR118W | YPR118W | MRI1 | S-methyl-5-thioribose-1-phosphate isomerase MRI1 | 5'-methylthioribose-1-phosphate isomerase; catalyzes the isomerization of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate in the methionine salvage pathway | Core | NA | NA | NA |
| 7740-YPR119W | YPR119W | CLB2 | B-type cyclin CLB2 | B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome; CLB2 has a paralog, CLB1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7741-YPR120C | YPR120C | CLB5 | B-type cyclin CLB5 | B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1 phase; CLB5 has a paralog, CLB6, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7742-YPR121W | YPR121W | THI22 | putative phosphomethylpyrimidine kinase | Protein with similarity to hydroxymethylpyrimidine phosphate kinases; member of a gene family with THI20 and THI21; not required for thiamine biosynthesis; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum and vacuole respectively | Accessory | Ancestral | NA | NA |
| 7743-YPR122W | YPR122W | AXL1 | STE22|FUS5 | Haploid specific endoprotease of a-factor mating pheromone; performs one of two N-terminal cleavages during maturation of a-factor mating pheromone; required for axial budding pattern of haploid cells | Core | NA | NA | NA |
| 7744-YPR124W_NumOfGenes_2 | YPR124W | CTR1 | high-affinity Cu transporter CTR1 | High-affinity copper transporter of plasma membrane; mediates nearly all copper uptake under low copper conditions; transcriptionally induced at low copper levels and degraded at high copper levels; protein increases in abundance and relocalizes from nucleus to plasma membrane upon DNA replication stress; human homolog SLC31A1 can complement a yeast ctr1 ctr3 double deletion | Core | NA | NA | NA |
| 7745-YPR125W_NumOfGenes_2 | YPR125W | YLH47 | MRS7 | Mitochondrial inner membrane protein; exposed to the mitochondrial matrix; associates with mitochondrial ribosomes; NOT required for respiratory growth; homolog of human Letm1, a protein implicated in Wolf-Hirschhorn syndrome | Core | NA | NA | NA |
| 7746-YPR127W | YPR127W | NA | pyridoxine 4-dehydrogenase | Putative pyridoxine 4-dehydrogenase; differentially expressed during alcoholic fermentation; expression activated by transcription factor YRM1/YOR172W; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus | Core | NA | NA | NA |
| 7747-YPR128C | YPR128C | ANT1 | NA | Peroxisomal adenine nucleotide transporter; involved in beta-oxidation of medium-chain fatty acid; required for peroxisome proliferation | Core | NA | NA | NA |