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 |
|---|---|---|---|---|---|---|---|---|
| 4583-YIL102C-A | YIL102C-A | NA | NA | Putative protein of unknown function; identified based on comparisons of the genome sequences of six Saccharomyces species; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the endoplasmic reticulum | Core | NA | NA | NA |
| 4584-YIL103W | YIL103W | DPH1 | KIF48 | Protein required for synthesis of diphthamide; required along with Dph2p, Kti11p, Jjj3p, and Dph5p; diphthamide is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph2p and Kti11p | Core | NA | NA | NA |
| 4585-YIL104C | YIL104C | SHQ1 | Hsp90 cochaperone SHQ1 | Chaperone protein; required for the assembly of box H/ACA snoRNPs and thus for pre-rRNA processing; functions as an RNA mimic; forms a complex with Naf1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; homology with known Hsp90p cochaperones; relocalizes to the cytosol in response to hypoxia | Core | NA | NA | NA |
| 4586-YIL105C_NumOfGenes_2 | YIL105C | SLM1 | phosphatidylinositol 4,5-bisphosphate-binding protein|LIT2 | Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm2p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; protein abundance increases in response to DNA replication stress; SLM1 has a paralog, SLM2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4587-YIL106W | YIL106W | MOB1 | NA | Component of the mitotic exit network; associates with and is required for the activation and Cdc15p-dependent phosphorylation of the Dbf2p kinase; required for cytokinesis and cell separation; component of the CCR4 transcriptional complex; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress | Core | NA | NA | NA |
| 4588-YIL107C | YIL107C | PFK26 | PFK-2|PFK2 | 6-phosphofructo-2-kinase; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate; has negligible fructose-2,6-bisphosphatase activity; transcriptional regulation involves protein kinase A | Core | NA | NA | NA |
| 4589-YIL108W | YIL108W | NA | putative metalloendopeptidase | Putative metalloendopeptidase; forms cytoplasmic foci upon DNA replication stress | Core | NA | NA | NA |
| 4590-YIL109C | YIL109C | SEC24 | COPII subunit SEC24|ANU1 | Component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SEC24 has a paralog, SFB2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4591-YIL110W | YIL110W | HPM1 | MNI1 | AdoMet-dependent methyltransferase; involved in a novel 3-methylhistidine modification of ribosomal protein Rpl3p; seven beta-strand MTase family member; null mutant exhibits a weak vacuolar protein sorting defect and caspofungin resistance | Core | NA | NA | NA |
| 4592-YIL111W | YIL111W | COX5B | cytochrome c oxidase subunit Vb | Subunit Vb of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Bp is predominantly expressed during anaerobic growth while its isoform Va (Cox5Ap) is expressed during aerobic growth; COX5B has a paralog, COX5A, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4593-YIL112W | YIL112W | HOS4 | NA | Subunit of the Set3 complex; complex is a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity; potential Cdc28p substrate | Core | NA | NA | NA |
| 4594-YIL113W | YIL113W | SDP1 | mitogen-activated protein kinase tyrosine protein phosphatase SDP1 | Stress-inducible dual-specificity MAP kinase phosphatase; negatively regulates Slt2p MAP kinase by direct dephosphorylation, diffuse localization under normal conditions shifts to punctate localization after heat shock; SDP1 has a paralog, MSG5, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4595-YIL114C | YIL114C | POR2 | putative porin POR2|YVDAC2 | Putative mitochondrial porin (voltage-dependent anion channel); not required for mitochondrial membrane permeability or mitochondrial osmotic stability; POR2 has a paralog, POR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4596-YIL115C_NumOfGenes_2 | YIL115C | NUP159 | FG-nucleoporin NUP159|RAT7|NUP158 | FG-nucleoporin component of central core of the nuclear pore complex; also part of the nuclear pore complex (NPC) cytoplasmic filaments; contributes directly to nucleocytoplasmic transport; regulates ADP release from the ATP-dependent RNA helicase Dbp5p; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup116p) | Core | NA | NA | NA |
| 4597-YIL116W | YIL116W | HIS5 | histidinol-phosphate transaminase | Histidinol-phosphate aminotransferase; catalyzes the seventh step in histidine biosynthesis; responsive to general control of amino acid biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts | Core | NA | NA | NA |