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 |
|---|---|---|---|---|---|---|---|---|
| 7463-YPL115C | YPL115C | BEM3 | NA | Rho GTPase activating protein (RhoGAP); involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly | Core | NA | NA | NA |
| 7464-YPL116W | YPL116W | HOS3 | histone deacetylase | Trichostatin A-insensitive homodimeric histone deacetylase (HDAC); specificity in vitro for histones H3, H4, H2A, and H2B; similar to Hda1p, Rpd3p, Hos1p, and Hos2p; deletion results in increased histone acetylation at rDNA repeats | Core | NA | NA | NA |
| 7465-YPL117C | YPL117C | IDI1 | isopentenyl-diphosphate delta-isomerase IDI1|LPH10|BOT2 | Isopentenyl diphosphate:dimethylallyl diphosphate isomerase; catalyzes an essential activation step in the isoprenoid biosynthetic pathway; required for viability; isopentenyl diphosphate:dimethylallyl diphosphate isomerase is also known as IPP isomerase | Core | NA | NA | NA |
| 7466-YPL118W | YPL118W | MRP51 | mitochondrial 37S ribosomal protein MRP51 | Mitochondrial ribosomal protein of the small subunit; MRP51 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences | Core | NA | NA | NA |
| 7467-YPL119C | YPL119C | DBP1 | putative DEAD-box ATP-dependent RNA helicase DBP1|LPH8 | Putative ATP-dependent RNA helicase of the DEAD-box protein family; mutants show reduced stability of the 40S ribosomal subunit scanning through 5' untranslated regions of mRNAs; protein abundance increases in response to DNA replication stress; DBP1 has a paralog, DED1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7468-YPL119C-A | YPL119C-A | NA | NA | Putative protein of unknown function; identified by expression profiling and mass spectrometry | Core | NA | NA | NA |
| 7469-YPL120W | YPL120W | VPS30 | beclin 1|ATG6|VPT30|APG6 | Subunit of phosphatidylinositol (PtdIns) 3-kinase complexes I and II; Complex I is essential in autophagy, Complex II is required for vacuolar protein sorting; required for overflow degradation of misfolded proteins when ERAD is saturated; C-terminus has novel globular fold essential for autophagy through the targeting of the PI3-kinase complex I to the pre-autophagosomal structure; ortholog of higher eukaryote gene Beclin 1; human BECN1 can complement yeast null mutant | Core | NA | NA | NA |
| 7470-YPL121C | YPL121C | MEI5 | LPH6 | Meiosis-specific protein involved in meiotic recombination; involved in DMC1-dependent meiotic recombination; forms heterodimer with Sae3p; proposed to be an assembly factor for Dmc1p | Core | NA | NA | NA |
| 7471-YPL122C | YPL122C | TFB2 | TFIIH/NER complex subunit TFB2 | Subunit of TFIIH and nucleotide excision repair factor 3 complexes; involved in transcription initiation, required for nucleotide excision repair, similar to 52 kDa subunit of human TFIIH | Core | NA | NA | NA |
| 7472-YPL123C | YPL123C | RNY1 | ribonuclease T2 | Vacuolar RNase of the T(2) family; relocalizes to the cytosol where it cleaves tRNAs upon oxidative or stationary phase stress; required for tRNA-specific translational pausing suring oxidative stress; promotes apoptosis under stress conditions and this function is independent of Rny1p catalytic activity | Core | NA | NA | NA |
| 7473-YPL124W | YPL124W | SPC29 | NIP29|LPH3 | Inner plaque spindle pole body (SPB) component; links the central plaque component Spc42p to the inner plaque component Spc110p; required for SPB duplication | Core | NA | NA | NA |
| 7474-YPL125W | YPL125W | KAP120 | LPH2 | Karyopherin responsible for the nuclear import of Rpf1p; Rpf1p is a ribosome maturation factor | Core | NA | NA | NA |
| 7475-YPL126W | YPL126W | NAN1 | UTP17 | U3 snoRNP protein; component of the small (ribosomal) subunit (SSU) processosome containing U3 snoRNA; required for the biogenesis of18S rRNA | Core | NA | NA | NA |
| 7476-YPL127C | YPL127C | HHO1 | histone H1 | Histone H1, linker histone with roles in meiosis and sporulation; decreasing levels early in sporulation may promote meiosis, and increasing levels during sporulation facilitate compaction of spore chromatin; binds to promoters and within genes in mature spores; may be recruited by Ume6p to promoter regions, contributing to transcriptional repression outside of meiosis; suppresses DNA repair involving homologous recombination | Core | NA | NA | NA |
| 7477-YPL128C | YPL128C | TBF1 | LPI16 | Telobox-containing general regulatory factor; binds TTAGGG repeats within subtelomeric anti-silencing regions (STARs), blocking silent chromatin propagation; binds majority of snoRNA gene promoters, required for full snoRNA expression; caps DSB flanked by long T2AG3 repeats and blocks checkpoint activation | Core | NA | NA | NA |