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 |
|---|---|---|---|---|---|---|---|---|
| 7508-YPL160W | YPL160W | CDC60 | leucine--tRNA ligase CDC60|LeuRS | Cytosolic leucyl tRNA synthetase; ligates leucine to the appropriate tRNA; human homolog LARS can complement yeast temperature-sensitive mutant at restrictive temperature | Core | NA | NA | NA |
| 7509-YPL161C | YPL161C | BEM4 | ROM7 | Protein involved in establishment of cell polarity and bud emergence; interacts with the Rho1p small GTP-binding protein and with the Rho-type GTPase Cdc42p; involved in maintenance of proper telomere length | Core | NA | NA | NA |
| 7510-YPL162C | YPL162C | NA | NA | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of vacuole with cell cycle-correlated morphology | Core | NA | NA | NA |
| 7511-YPL163C | YPL163C | SVS1 | NA | Cell wall and vacuolar protein; required for wild-type resistance to vanadate; SVS1 has a paralog, SRL1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7512-YPL164C | YPL164C | MLH3 | mismatch repair protein MLH3 | Protein involved in DNA mismatch repair and meiotic recombination; involved in crossing-over during meiotic recombination; forms a complex with Mlh1p; mammalian homolog is implicated mammalian microsatellite instability | Core | NA | NA | NA |
| 7513-YPL165C | YPL165C | SET6 | NA | SET domain protein of unknown function; deletion heterozygote is sensitive to compounds that target ergosterol biosynthesis, may be involved in compound availability | Core | NA | NA | NA |
| 7514-YPL166W | YPL166W | ATG29 | NA | Autophagy-specific protein; required for recruiting other ATG proteins to the pre-autophagosomal structure (PAS); interacts with Atg17p and localizas to the PAS in a manner interdependent with Atg17p and Cis1p; not conserved; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress | Core | NA | NA | NA |
| 7515-YPL167C | YPL167C | REV3 | PSO1 | Catalytic subunit of DNA polymerase zeta; involved in translesion synthesis during post-replication repair; required for mutagenesis induced by DNA damage; involved in double-strand break repair; forms a complex with Rev7p, Pol31p and Pol32p | Core | NA | NA | NA |
| 7516-YPL168W | YPL168W | MRX4 | NA | Protein that associates with mitochondrial ribosome; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; expression may be cell cycle-regulated | Core | NA | NA | NA |
| 7517-YPL169C | YPL169C | MEX67 | NA | Poly(A)RNA binding protein involved in nuclear mRNA export; component of the nuclear pore; ortholog of human TAP | Core | NA | NA | NA |
| 7518-YPL170W | YPL170W | DAP1 | NA | Heme-binding protein; involved in regulation of cytochrome P450 protein Erg11p; damage response protein, related to mammalian membrane progesterone receptors; mutations lead to defects in telomeres, mitochondria, and sterol synthesis | Core | NA | NA | NA |
| 7519-YPL171C | YPL171C | OYE3 | NADPH dehydrogenase|ZRG6 | Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN); homologous to Oye2p with different ligand binding and catalytic properties; has potential roles in oxidative stress response and programmed cell death | Core | NA | NA | NA |
| 7520-YPL172C | YPL172C | COX10 | protoheme IX farnesyltransferase | Heme A:farnesyltransferase; catalyzes first step in conversion of protoheme to heme A prosthetic group required for cytochrome c oxidase activity; human ortholog COX10 can complement yeast cox10 null mutant; human ortholog COX10 is associated with mitochondrial disorders | Core | NA | NA | NA |
| 7521-YPL173W | YPL173W | MRPL40 | mitochondrial 54S ribosomal protein YmL40|YmL40 | Mitochondrial ribosomal protein of the large subunit | Core | NA | NA | NA |
| 7522-YPL174C | YPL174C | NIP100 | PAC13 | Large subunit of the dynactin complex; dynactin is involved in partitioning the mitotic spindle between mother and daughter cells; putative ortholog of mammalian p150(glued) | Core | NA | NA | NA |