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 |
|---|---|---|---|---|---|---|---|---|
| 7058-YOR091W | YOR091W | TMA46 | RBF46 | Protein of unknown function that associates with translating ribosomes; interacts with GTPase Rbg1p | Core | NA | NA | NA |
| 7059-YOR092W | YOR092W | ECM3 | putative ATPase ECM3|YOR3165W | Non-essential protein of unknown function; involved in signal transduction and the genotoxic response; induced rapidly in response to treatment with 8-methoxypsoralen and UVA irradiation; relocalizes from ER to cytoplasm upon DNA replication stress; ECM3 has a paralog, YNL095C, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7060-YOR093C | YOR093C | CMR2 | NA | Putative protein of unknown function; deletion causes sensitivity to unfolded protein response-inducing agents | Core | NA | NA | NA |
| 7061-YOR094W | YOR094W | ARF3 | Arf family GTPase ARF3|ARL2 | Glucose-repressible ADP-ribosylation factor; GTPase of Ras superfamily involved in regulating cell polarity and invasive growth; localizes to dynamic spots at plasma membrane and modulates PtdIns(4,5)P2 levels to facilitate endocytosis; required for localization of endocytic protein Lsb5p to correct cortical site in cells; also has mRNA binding activity; homolog of mammalian Arf6 | Core | NA | NA | NA |
| 7062-YOR095C | YOR095C | RKI1 | ribose-5-phosphate isomerase RKI1 | Ribose-5-phosphate ketol-isomerase; catalyzes the interconversion of ribose 5-phosphate and ribulose 5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis | Core | NA | NA | NA |
| 7063-YOR096W_NumOfGenes_2 | YOR096W | RPS7A | eS7|ribosomal 40S subunit protein S7A|S7e|rp30|S7A|RPS30 | Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7A has a paralog, RPS7B, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7064-YOR097C | YOR097C | NA | NA | Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen; YOR097C is not an essential gene | Core | NA | NA | NA |
| 7065-YOR098C | YOR098C | NUP1 | FG-nucleoporin NUP1 | FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of thenuclear pore complex (NPC) permeability barrier; possible karyopherin release factor that accelerates release of karyopherin-cargo complexes after transport across NPC; both NUP1 and NUP60 are homologous to human NUP153 | Core | NA | NA | NA |
| 7066-YOR099W | YOR099W | KTR1 | alpha-1,2-mannosyltransferase KTR1 | Alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; type II membrane protein; member of the KRE2/MNT1 mannosyltransferase family; relocalizes from vacuole to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 7067-YOR100C | YOR100C | CRC1 | carnitine:acyl carnitine antiporter | Mitochondrial inner membrane carnitine transporter; required for carnitine-dependent transport of acetyl-CoA from peroxisomes to mitochondria during fatty acid beta-oxidation; human homolog SLC25A20 complements yeast null mutant | Core | NA | NA | NA |
| 7068-YOR101W_NumOfGenes_2 | YOR101W | RAS1 | Ras family GTPase RAS1 | GTPase involved in G-protein signaling in adenylate cyclase activation; plays a role in cell proliferation; localized to the plasma membrane; homolog of mammalian RAS proto-oncogenes; relative distribution to the nucleus increases upon DNA replication stress; RAS1 has a paralog, RAS2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7069-YOR103C_NumOfGenes_2 | YOR103C | OST2 | dolichyl-diphosphooligosaccharide-protein glycotransferase | Epsilon subunit of the oligosaccharyltransferase complex; located in the ER lumen; catalyzes asparagine-linked glycosylation of newly synthesized proteins | Core | NA | NA | NA |
| 7070-YOR105W_NumOfGenes_2 | YOR105W | NA | NA | Protein of unknown function; expressed at both mRNA and protein levels | Core | NA | NA | NA |
| 7071-YOR106W | YOR106W | VAM3 | SNAP receptor VAM3|PTH1 | Syntaxin-like vacuolar t-SNARE; functions with Vam7p in vacuolar protein trafficking; mediates docking/fusion of late transport intermediates with the vacuole; has an acidic di-leucine sorting signal and C-terminal transmembrane region | Core | NA | NA | NA |
| 7072-YOR107W | YOR107W | RGS2 | GTPase-activating protein RGS2 | Negative regulator of glucose-induced cAMP signaling; directly activates the GTPase activity of the heterotrimeric G protein alpha subunit Gpa2p | Core | NA | NA | NA |