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 |
|---|---|---|---|---|---|---|---|---|
| 7133-YOR172W | YOR172W | YRM1 | NA | Zinc finger transcription factor involved in multidrug resistance; Zn(2)-Cys(6) zinc finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrr1p, acting on an overlapping set of target genes | Core | NA | NA | NA |
| 7134-YOR173W | YOR173W | DCS2 | 5'-(N(7)-methyl 5'-triphosphoguanosine)-(mRNA) diphosphatase | m(7)GpppX pyrophosphatase regulator; non-essential, stress induced regulatory protein; modulates m7G-oligoribonucleotide metabolism; inhibits Dcs1p; regulated by Msn2p, Msn4p, and the Ras-cAMP-cAPK signaling pathway; mutant has increased aneuploidy tolerance; DCS2 has a paralog, DCS1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7135-YOR174W | YOR174W | MED4 | NA | Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation | Core | NA | NA | NA |
| 7136-YOR175C | YOR175C | ALE1 | lysophospholipid acyltransferase|LCA1|LPT1|SLC4 | Broad-specificity lysophospholipid acyltransferase; part of MBOAT family of membrane-bound O-acyltransferases; key component of Lands cycle; may have role in fatty acid exchange at sn-2 position of mature glycerophospholipids | Core | NA | NA | NA |
| 7137-YOR176W | YOR176W | HEM15 | ferrochelatase HEM15 | Ferrochelatase; a mitochondrial inner membrane protein, catalyzes insertion of ferrous iron into protoporphyrin IX, the eighth and final step in the heme biosynthetic pathway; human homolog FECH can complement yeast mutant and allow growth of haploid null after sporulation of a heterozygous diploid | Core | NA | NA | NA |
| 7138-YOR177C | YOR177C | MPC54 | NA | Component of the meiotic outer plaque; a membrane-organizing center which is assembled on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane; potential Cdc28p substrate | Core | NA | NA | NA |
| 7139-YOR178C | YOR178C | GAC1 | protein phosphatase regulator GAC1 | Regulatory subunit for Glc7p type-1 protein phosphatase (PP1); tethers Glc7p to Gsy2p glycogen synthase, binds Hsf1p heat shock transcription factor, required for induction of some HSF-regulated genes under heat shock; GAC1 has a paralog, PIG1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7140-YOR179C | YOR179C | SYC1 | cleavage polyadenylation factor subunit SYC1 | Subunit of the APT subcomplex of cleavage and polyadenylation factor; may have a role in 3' end formation of both polyadenylated and non-polyadenylated RNAs; SYC1 has a paralog, YSH1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7141-YOR180C | YOR180C | DCI1 | putative dodecenoyl-CoA isomerase DCI1|ECI2 | Peroxisomal protein; identification as a delta(3,5)-delta(2,4)-dienoyl-CoA isomerase involved in fatty acid metabolism is disputed; DCI1 has a paralog, ECI1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7142-YOR181W | YOR181W | LAS17 | actin-binding protein LAS17|BEE1 | Actin assembly factor; C-terminal WCA domain activates Arp2/3 complex-mediated nucleation of branched actin filaments, polyproline domain nucleates actin filaments independent of Arp2/3; mutants are defective in endocytosis, bud site selection, cytokinesis; human homolog WAS (Wiskott-Aldrich Syndrome) implicated in severe immunodeficiency; human WAS complements yeast null mutant, but only in presence of WIPF1, which mediates localization of WAS to cortical patches | Core | NA | NA | NA |
| 7143-YOR182C | YOR182C | RPS30B | eS30|ribosomal 40S subunit protein S30B|S30e|S30B | Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S30, no bacterial homolog; RPS30B has a paralog, RPS30A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress | Accessory | Introgression | S. paradoxus | NA |
| 7144-YOR183W | YOR183W | FYV12 | NA | Protein of unknown function; required for survival upon exposure to K1 killer toxin | Core | NA | NA | NA |
| 7145-YOR184W | YOR184W | SER1 | O-phospho-L-serine:2-oxoglutarate transaminase|ADE9 | 3-phosphoserine aminotransferase; catalyzes the formation of phosphoserine from 3-phosphohydroxypyruvate, required for serine and glycine biosynthesis; regulated by the general control of amino acid biosynthesis mediated by Gcn4p; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 7146-YOR185C | YOR185C | GSP2 | Ran GTPase GSP2|CNR2 | GTP binding protein (mammalian Ranp homolog); involved in the maintenance of nuclear organization, RNA processing and transport; interacts with Kap121p, Kap123p and Pdr6p (karyophilin betas); not required for viability; protein abundance increases in response to DNA replication stress; GSP2 has a paralog, GSP1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7147-YOR186W_NumOfGenes_2 | YOR186W | NA | NA | Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent; mCherry fusion protein localizes to the vacuole; YOR186W has a paralog, YLR297W, that arose from the whole genome duplication | Core | NA | NA | NA |