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
7073-YOR108W_NumOfGenes_2 YOR108W LEU9 2-isopropylmalate synthase LEU9 Alpha-isopropylmalate synthase II (2-isopropylmalate synthase); catalyzes the first step in the leucine biosynthesis pathway; the minor isozyme, responsible for the residual alpha-IPMS activity detected in a leu4 null mutant; LEU9 has a paralog, LEU4, that arose from the whole genome duplication Core NA NA NA
7074-YOR109W YOR109W INP53 phosphatidylinositol-3-/phosphoinositide 5-phosphatase INP53|SOP2|SJL3 Polyphosphatidylinositol phosphatase; dephosphorylates multiple phosphatidylinositol phosphates; involved in trans Golgi network-to-early endosome pathway; hyperosmotic stress causes translocation to actin patches; contains Sac1 and 5-ptase domains; INP53 has a paralog, INP52, that arose from the whole genome duplication Core NA NA NA
7075-YOR110W YOR110W TFC7 transcription factor TFIIIC subunit TFC7|tau 55 RNA pol III transcription initiation factor complex (TFIIIC) subunit; part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; TFC7 has a paralog, YNL108C, that arose from the whole genome duplication Core NA NA NA
7076-YOR111W YOR111W NA NA Putative protein of unknown function Core NA NA NA
7077-YOR112W YOR112W CEX1 NA Component of nuclear aminoacylation-dependent tRNA export pathway; cytoplasmic; interacts with nuclear pore component Nup116p; copurifies with tRNA export receptors Los1p and Msn5p, as well as eIF-1a; required for activation of RAN GTPase Gsp1p and dissociation of receptor-tRNA-Gsp1p export complex; recruits Rna1p from cytoplasm to NPC, facilitates Rna1p activation of Gsp1p GTPase activity by enabling Rna1p to gain access to Gsp1p-GTP bound to export receptor tRNA complex Core NA NA NA
7078-YOR113W YOR113W AZF1 NA Zinc-finger transcription factor; involved in diauxic shift; in the presence of glucose, activates transcription of genes involved in growth and carbon metabolism; in nonfermentable carbon sources, activates transcription of genes involved in maintenance of cell wall integrity; relocalizes to the cytosol in response to hypoxia Core NA NA NA
7079-YOR114W YOR114W NA NA Putative protein of unknown function; null mutant is viable Core NA NA NA
7080-YOR115C YOR115C TRS33 NA Core component of TRAPP complexes I, II and IV; transport protein particle (TRAPP) complexes are related multimeric guanine nucleotide-exchange factor for the GTPase Ypt1p, regulating ER-Golgi traffic (TRAPPI), intra-Golgi traffic (TRAPPII), endosome-Golgi traffic (TRAPPII and III) and autophagy (TRAPPIII, and IV); proposed subunit of a novel complex, TRAPPIV, that may function redundantly with TRAPPIII as a GEF that activates Ypt1 during autophagy Core NA NA NA
7081-YOR116C YOR116C RPO31 DNA-directed RNA polymerase III core subunit RPO31|C160|RPC160|RPC1 RNA polymerase III largest subunit C160; part of core enzyme; similar to bacterial beta-prime subunit and to RPA190 and RPO21 Core NA NA NA
7082-YOR117W YOR117W RPT5 proteasome regulatory particle base subunit RPT5|YTA1 ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription; similar to human TBP1 Core NA NA NA
7083-YOR118W YOR118W RTC5 NA Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; null mutation suppresses cdc13-1 temperature sensitivity Core NA NA NA
7084-YOR119C YOR119C RIO1 protein kinase RIO1|RRP10 Serine kinase involved in cell cycle regulation and rDNA integrity; associated with late pre-40S particles via its conserved C-terminal domain and participates in late 40S biogenesis; association with pre-40S particles regulated by its catalytic ATPase site and likely occurs after the release of Rio2p from these particles; involved in cell cycle progression and processing of the 20S pre-rRNA into mature 18S rRNA; phosphorylates Rpa43p in anaphase to remove Pol I from rDNA Core NA NA NA
7085-YOR120W_NumOfGenes_2 YOR120W GCY1 glycerol 2-dehydrogenase (NADP(+)) GCY1|GCY Glycerol dehydrogenase; involved in an alternative pathway for glycerol catabolism used under microaerobic conditions; also has mRNA binding activity; member of the aldo-keto reductase (AKR) family; human homolog AKR1B1 can complement yeast null mutant; protein abundance increases in response to DNA replication stress; GCY1 has a paralog, YPR1, that arose from the whole genome duplication Core NA NA NA
7086-YOR122C YOR122C PFY1 profilin|CLS5|PRF1 Profilin; binds actin, phosphatidylinositol 4,5-bisphosphate, and polyproline regions; involved in cytoskeleton organization; required for normal timing of actin polymerization in response to thermal stress; protein abundance increases in response to DNA replication stress; highly conserved protein; human PFN1 (profilin 1) complements temperature sensitive pfy1 mutants, PFN1 mutations are a rare cause of ALS Core NA NA NA
7087-YOR123C YOR123C LEO1 NA Component of the Paf1 complex; which associates with RNA polymerase II and is involved in histone methylation; plays a role in regulating Ty1 transposition; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay Core NA NA NA

page 469 of 520