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 |
|---|---|---|---|---|---|---|---|---|
| 3263-YEL028W | YEL028W | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains; YEL028C is not an essential gene | Core | NA | NA | NA |
| 3264-YEL029C | YEL029C | BUD16 | putative pyridoxal kinase BUD16 | Putative pyridoxal kinase; a key enzyme involved in pyridoxal 5'-phosphate synthesis, the active form of vitamin B6; required for genome integrity; involved in bud-site selection; similarity to yeast BUD17 and human pyridoxal kinase (PDXK) | Core | NA | NA | NA |
| 3265-YEL030W_NumOfGenes_2 | YEL030W | ECM10 | Hsp70 family ATPase ECM10|SSC3 | Heat shock protein of the Hsp70 family; localized in mitochondrial nucleoids, plays a role in protein translocation, interacts with Mge1p in an ATP-dependent manner; overexpression induces extensive mitochondrial DNA aggregations; ECM10 has a paralog, SSC1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3266-YEL031W | YEL031W | SPF1 | ion-transporting P-type ATPase SPF1|PER9|PIO1|COD1 | P-type ATPase, ion transporter of the ER membrane; required to maintain normal lipid composition of intracellular compartments and proper targeting of mitochondrial outer membrane tail-anchored proteins; involved in ER function and Ca2+ homeostasis; required for regulating Hmg2p degradation; confers sensitivity to a killer toxin (SMKT) produced by Pichia farinosa KK1 | Core | NA | NA | NA |
| 3267-YEL032W_NumOfGenes_2 | YEL032W | MCM3 | MCM DNA helicase complex subunit MCM3 | Protein involved in DNA replication; component of the Mcm2-7 hexameric helicase complex that binds chromatin as a part of the pre-replicative complex | Core | NA | NA | NA |
| 3268-YEL033W | YEL033W | MTC7 | NA | Protein of unknown function; predicted metabolic role based on network analysis derived from ChIP experiments, a large-scale deletion study and localization of transcription factor binding sites; null mutant is sensitive to temperature oscillation in a cdc13-1 mutant | Accessory | Ancestral | NA | NA |
| 3269-YEL034W_NumOfGenes_2 | YEL034W | HYP2 | translation elongation factor eIF-5A|eIF-5A|eIF5A|TIF51A | Translation elongation factor eIF-5A; required for translation of proteins containing polyproline stretches, including Bni1p, and this leads to a requirement for mating projection formation; structural homolog of bacterial EF-P; undergoes an essential hypusination modification; HYP2 has a paralog, ANB1, that arose from the whole genome duplication; human EIF5A complements the inviability of the yeast hyp2 anb1 double null mutant | Core | NA | NA | NA |
| 3270-YEL035C | YEL035C | UTR5 | NA | Protein of unknown function; transcription may be regulated by Gcr1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions | Core | NA | NA | NA |
| 3271-YEL036C | YEL036C | ANP1 | MNN8|GEM3 | Subunit of the alpha-1,6 mannosyltransferase complex; type II membrane protein; has a role in retention of glycosyltransferases in the Golgi; involved in osmotic sensitivity and resistance to aminonitrophenyl propanediol | Core | NA | NA | NA |
| 3272-YEL037C | YEL037C | RAD23 | NA | Protein with ubiquitin-like N terminus; subunit of Nuclear Excision Repair Factor 2 (NEF2) with Rad4p that binds damaged DNA; enhances protein deglycosylation activity of Png1p; also involved, with Rad4p, in ubiquitylated protein turnover; Rad4p-Rad23p heterodimer binds to promoters of DNA damage response genes to repress their transcription in the absence of DNA damage | Core | NA | NA | NA |
| 3273-YEL038W | YEL038W | UTR4 | putative acireductone synthase UTR4 | Protein with sequence similarity to acireductone synthases; involved in methionine salvage; found in both the cytoplasm and nucleus | Core | NA | NA | NA |
| 3274-YEL039C | YEL039C | CYC7 | cytochrome c isoform 2 | Cytochrome c isoform 2, expressed under hypoxic conditions; also known as iso-2-cytochrome c; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; protein abundance increases in response to DNA replication stress; CYC7 has a paralog, CYC1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3275-YEL040W | YEL040W | UTR2 | CRH2 | Chitin transglycosylase; functions in the transfer of chitin to beta(1-6) and beta(1-3) glucans in the cell wall; similar to and functionally redundant with Crh1; glycosylphosphatidylinositol (GPI)-anchored protein localized to bud neck | Core | NA | NA | NA |
| 3276-YEL041W | YEL041W | YEF1 | NADH/NAD(+) kinase | ATP-NADH kinase; phosphorylates both NAD and NADH; homooctameric structure consisting of 60-kDa subunits; similar to Pos5p; overexpression complements certain pos5 phenotypes; YEF1 has a paralog, UTR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3277-YEL042W | YEL042W | GDA1 | guanosine diphosphatase | Guanosine diphosphatase located in the Golgi; involved in the transport of GDP-mannose into the Golgi lumen, converting GDP to GMP after mannose is transferred to substrates; null mutants are defective in sporulation and pre-meiotic S phase entry; orthologous to human ENTPD6, a meiosis-associated non-obstructive azoospermia (NOA) related gene identified in GWAS studies | Core | NA | NA | NA |