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 |
|---|---|---|---|---|---|---|---|---|
| 4118-YGR216C | YGR216C | GPI1 | phosphatidylinositol N-acetylglucosaminyltransferase | Membrane protein involved in the synthesis of GlcNAc-PI; N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI) is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; human and mouse GPI1p are functional homologs | Core | NA | NA | NA |
| 4119-YGR217W | YGR217W | CCH1 | NA | Voltage-gated high-affinity calcium channel; involved in calcium influx in response to some environmental stresses as well as exposure to mating pheromones; interacts and partially co-localizes with Mid1p; however, evidence suggests CCH1 is not required for Mid1p function | Core | NA | NA | NA |
| 4120-YGR218W | YGR218W | CRM1 | exportin CRM1|XPO1|KAP124 | Major karyopherin; involved in export of proteins, RNAs, and ribosomal subunits from the nucleus; exportin | Core | NA | NA | NA |
| 4121-YGR220C_NumOfGenes_2 | YGR220C | MRPL9 | mitochondrial 54S ribosomal protein YmL9|YmL9 | Mitochondrial ribosomal protein of the large subunit | Core | NA | NA | NA |
| 4122-YGR221C | YGR221C | TOS2 | NA | Protein involved in localization of Cdc24p to the site of bud growth; may act as a membrane anchor; localizes to the bud neck and bud tip; potentially phosphorylated by Cdc28p; TOS2 has a paralog, SKG6, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4123-YGR222W | YGR222W | PET54 | NA | Mitochondrial inner membrane protein; binds to the 5' UTR of the COX3 mRNA to activate its translation together with Pet122p and Pet494p; also binds to the COX1 Group I intron AI5 beta to facilitate exon ligation during splicing | Core | NA | NA | NA |
| 4124-YGR223C | YGR223C | HSV2 | NA | Phosphatidylinositol 3,5-bisphosphate-binding protein; plays a role in micronucleophagy; belongs to the PROPPIN family of proteins; predicted to fold as a seven-bladed beta-propeller; displays punctate cytoplasmic localization | Core | NA | NA | NA |
| 4125-YGR224W | YGR224W | AZR1 | azole transporter | Plasma membrane transporter of the major facilitator superfamily; involved in resistance to azole drugs such as ketoconazole and fluconazole | Core | NA | NA | NA |
| 4126-YGR225W_NumOfGenes_2 | YGR225W | AMA1 | SPO70 | Activator of meiotic anaphase promoting complex (APC/C); Cdc20p family member; required for initiation of spore wall assembly; required for Clb1p degradation during meiosis; prevents premature assembly of the meiosis I spindle, required for DSB induced prophase I arrest | Core | NA | NA | NA |
| 4127-YGR227W | YGR227W | DIE2 | dolichyl-P-Glc:Glc(2)Man(9)GlcNAc(2)-PP-dolichol alpha-1,2- glucosyltransferase|ALG10 | Dolichyl-phosphoglucose-dependent alpha-1,2-glucosyltransferase; located in the ER; functions in pathway that synthesizes the dolichol-linked oligosaccharide precursor for N-linked protein glycosylation; has a role in regulation of ITR1 and INO1; human homolog ALG10B can complement yeast die2 null mutant | Core | NA | NA | NA |
| 4128-YGR229C_NumOfGenes_2 | YGR229C | SMI1 | KNR4 | Protein involved in the regulation of cell wall synthesis; proposed to be involved in coordinating cell cycle progression with cell wall integrity | Core | NA | NA | NA |
| 4129-YGR230W | YGR230W | BNS1 | NA | Protein of unknown function; overexpression bypasses need for Spo12p, but not required for meiosis; BNS1 has a paralog, SPO12, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4130-YGR231C | YGR231C | PHB2 | prohibitin subunit PHB2 | Subunit of the prohibitin complex (Phb1p-Phb2p); prohibitin is a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation; prohibitin deficiency induces a mitochondrial unfolded protein response (mtUPR) | Core | NA | NA | NA |
| 4131-YGR232W | YGR232W | NAS6 | NA | Evolutionarily conserved 19S regulatory particle assembly-chaperone; proteasome-interacting protein involved in the assembly of the base subcomplex of the 19S proteasomal regulatory particle (RP); ortholog of human oncoprotein gankyrin, also known as p28, which interacts with the Rb tumor suppressor and CDK4/6 | Core | NA | NA | NA |
| 4132-YGR233C | YGR233C | PHO81 | VAC6|phoS | Cyclin-dependent kinase (CDK) inhibitor; regulates Pho80p-Pho85p and Pcl7p-Pho85p cyclin-CDK complexes in response to phosphate levels; inhibitory activity for Pho80p-Pho85p requires myo-D-inositol heptakisphosphate (IP7) generated by Vip1p; relative distribution to the nucleus increases upon DNA replication stress | Core | NA | NA | NA |