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 |
|---|---|---|---|---|---|---|---|---|
| 7148-YOR187W | YOR187W | TUF1 | translation elongation factor Tu|tufM | Mitochondrial translation elongation factor Tu (EF-Tu); involved in fundamental pathway of mtDNA homeostasis; comprises both GTPase and guanine nucleotide exchange factor activities, while these activities are found in separate proteins in S. pombe and humans; rare mutations in human mitochondrial elongation factor Tu (EFTu) associated with severe lactic acidosis, rapidly progressive fatal encephalopathy, severe infantile macrocystic leukodystrophy with micropolygyria | Core | NA | NA | NA |
| 7149-YOR188W | YOR188W | MSB1 | NA | Protein of unknown function; may be involved in positive regulation of 1,3-beta-glucan synthesis and the Pkc1p-MAPK pathway; multicopy suppressor of temperature-sensitive mutations in CDC24 and CDC42, and of mutations in BEM4; potential Cdc28p substrate; relocalizes from bud neck to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7150-YOR189W | YOR189W | IES4 | NA | Component of the INO80 chromatiin remodeling complex; target of the Mec1p/Tel1p DNA damage signaling pathway; proposed to link chromatin remodeling to replication checkpoint responses | Core | NA | NA | NA |
| 7151-YOR190W | YOR190W | SPR1 | glucan 1,3-beta-glucosidase|SSG1 | Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance; SPR1 has a paralog, EXG1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7152-YOR191W | YOR191W | ULS1 | translocase ULS1|RIS1|TID4|DIS1 | Swi2/Snf2-related translocase, SUMO-Targeted Ubiquitin Ligase (STUbL); required for maintenance of NHEJ inhibition at telomeres; functions at telomeres to translocate and ubiquitinylate poly-sumoylated Rap1p for proteosomal degradation; plays role in antagonizing silencing during mating-type switching; only known STUbL with a translocase activity; contains RING finger domain; relocalizes from nucleus to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7153-YOR192C | YOR192C | THI72 | thiamine transporter | Transporter of thiamine or related compound; contributes to uptake of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranoside (acadesine); shares sequence similarity with Thi7p | Core | NA | NA | NA |
| 7154-YOR193W | YOR193W | PEX27 | NA | Peripheral peroxisomal membrane protein; involved in controlling peroxisome size and number, interacts with Pex25p; PEX27 has a paralog, PEX25, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7155-YOR194C | YOR194C | TOA1 | transcription initiation factor IIA large subunit | TFIIA large subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; required, along with Toa2p, for ribosomal protein gene transcription in vivo; homologous to largest and second largest subunits of human and Drosophila TFIIA | Core | NA | NA | NA |
| 7156-YOR195W | YOR195W | SLK19 | NA | Kinetochore-associated protein; required for chromosome segregation and kinetochore clustering; required for normal segregation of chromosomes in meiosis and mitosis; component of the FEAR regulatory network, which promotes Cdc14p release from the nucleolus during anaphase; potential Cdc28p substrate | Core | NA | NA | NA |
| 7157-YOR196C | YOR196C | LIP5 | putative lipoate synthase | Protein involved in biosynthesis of the coenzyme lipoic acid; has similarity to E. coli lipoic acid synthase | Core | NA | NA | NA |
| 7158-YOR197W | YOR197W | MCA1 | Ca(2+)-dependent cysteine protease MCA1|YCA1 | Ca2+-dependent cysteine protease; may cleave specific substrates during the stress response; regulates apoptosis upon H2O2 treatment; required for clearance of insoluble protein aggregates during normal growth; implicated in cell cycle dynamics and lifespan extension; undergoes autocatalytic processing; similar to mammalian metacaspases, but exists as a monomer due to an extra pair of anti-parallel beta-strands that block potential dimerization | Core | NA | NA | NA |
| 7159-YOR198C | YOR198C | BFR1 | NA | Component of mRNP complexes associated with polyribosomes; involved in localization of mRNAs to P bodies; implicated in secretion and nuclear segregation; multicopy suppressor of BFA (Brefeldin A) sensitivity | Core | NA | NA | NA |
| 7160-YOR199W | YOR199W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 7161-YOR201C_NumOfGenes_2 | YOR201C | MRM1 | PET56 | Ribose methyltransferase; modifies a functionally critical, conserved nucleotide in mitochondrial 21S rRNA | Core | NA | NA | NA |
| 7162-YOR202W | YOR202W | HIS3 | imidazoleglycerol-phosphate dehydratase HIS3|HIS8|HIS10 | Imidazoleglycerol-phosphate dehydratase; catalyzes the sixth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control via Gcn4p | Core | NA | NA | NA |