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 |
|---|---|---|---|---|---|---|---|---|
| 2138-YBR154C | YBR154C | RPB5 | DNA-directed RNA polymerase core subunit RPB5|ABC27 | RNA polymerase subunit ABC27; common to RNA polymerases I, II, and III; contacts DNA and affects transactivation | Accessory | Ancestral | NA | NA |
| 2139-YBR155W | YBR155W | CNS1 | HSP70/90 family co-chaperone CNS1 | TPR-containing co-chaperone; binds both Hsp82p (Hsp90) and Ssa1p (Hsp70); stimulates ATPase activity of Ssa1p; ts mutants reduce Hsp82p function, overexpression suppresses phenotypes of HSP82 ts allele and cpr7 deletion; human homolog TTC4 complements yeast cns1 mutant | Accessory | Ancestral | NA | NA |
| 2140-YBR156C | YBR156C | SLI15 | NA | Subunit of the conserved chromosomal passenger complex (CPC); complex regulates kinetochore-microtubule attachments, activation of the spindle tension checkpoint, and mitotic spindle disassembly; other complex members are Ipl1p, Bir1p, and Nbl1p | Core | NA | NA | NA |
| 2141-YBR157C | YBR157C | ICS2 | NA | Protein of unknown function; null mutation does not confer any obvious defects in growth, spore germination, viability, or carbohydrate utilization | Core | NA | NA | NA |
| 2142-YBR158W | YBR158W | AMN1 | CST13|ICS4 | Protein required for daughter cell separation; multiple mitotic checkpoints, and chromosome stability; contains 12 degenerate leucine-rich repeat motifs; expression is induced by the Mitotic Exit Network (MEN) | Core | NA | NA | NA |
| 2143-YBR159W | YBR159W | IFA38 | ketoreductase | Microsomal beta-keto-reductase; contains oleate response element (ORE) sequence in the promoter region; mutants exhibit reduced VLCFA synthesis, accumulate high levels of dihydrosphingosine, phytosphingosine and medium-chain ceramides | Core | NA | NA | NA |
| 2144-YBR160W | YBR160W | CDC28 | cyclin-dependent serine/threonine-protein kinase CDC28|SRM5|HSL5|CDK1 | Cyclin-dependent kinase (CDK) catalytic subunit; master regulator of mitotic and meiotic cell cycles; alternately associates with G1, S, G2/M phase cyclins, which provide substrate specificity; regulates metabolism, basal transcription, chromosome dynamics, growth and morphogenesis; transcript induction in osmostress involves antisense RNA; human homologs CDK1, CDK2, CDK3 can complement yeast conditional cdc28 mutants; human CDK1, CDK2 can complement yeast cdc28 null mutant | Core | NA | NA | NA |
| 2145-YBR161W | YBR161W | CSH1 | mannosylinositol phosphorylceramide synthase catalytic subunit CSH1 | Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Sur1p; CSH1 has a paralog, SUR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2146-YBR162C | YBR162C | TOS1 | NA | Covalently-bound cell wall protein of unknown function; identified as a cell cycle regulated SBF target gene; deletion mutants are highly resistant to treatment with beta-1,3-glucanase; has sequence similarity to YJL171C | Core | NA | NA | NA |
| 2147-YBR162W-A | YBR162W-A | YSY6 | NA | Protein of unknown function; expression suppresses a secretory pathway mutation in E. coli; has similarity to the mammalian RAMP4 protein involved in secretion | Core | NA | NA | NA |
| 2148-YBR163W | YBR163W | EXO5 | DEM1 | Mitochondrial 5'-3' exonuclease and sliding exonuclease; required for mitochondrial genome maintenance; distantly related to the RecB nuclease domain of bacterial RecBCD recombinases; may be regulated by the transcription factor Ace2 | Core | NA | NA | NA |
| 2149-YBR164C | YBR164C | ARL1 | Arf family GTPase ARL1|DLP2 | Soluble GTPase with a role in regulation of membrane traffic; regulates potassium influx; role in membrane organization at trans-Golgi network; required for delivery of Atg9p to the phagophore assembly site during autophagy under high temperature stress; required with Ypt6p for starvation-induced autophagy; required for the CVT pathway under non-starvation conditions; G protein of the Ras superfamily, similar to ADP-ribosylation factor | Core | NA | NA | NA |
| 2150-YBR165W | YBR165W | UBS1 | NA | Ubiquitin-conjugating enzyme suppressor that regulates Cdc34p; functions as a general positive regulator of Cdc34p activity; nuclear protein that may represent a link between nucleocytoplasmic transport and ubiquitin ligase activity | Core | NA | NA | NA |
| 2151-YBR166C | YBR166C | TYR1 | prephenate dehydrogenase (NADP(+)) | Prephenate dehydrogenase involved in tyrosine biosynthesis; expression is dependent on phenylalanine levels | Core | NA | NA | NA |
| 2152-YBR167C | YBR167C | POP7 | ribonuclease P/MRP protein subunit POP7|RPP2 | Subunit of RNase MRP, nuclear RNase P and telomerase; forms a soluble heterodimer with Pop6p that binds P3 domain of RNase MRP and RNase P RNAs; RNase MRP cleaves pre-rRNA, nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs, while telomerase replenishes telomeric DNA | Core | NA | NA | NA |