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 |
|---|---|---|---|---|---|---|---|---|
| 6578-YNL186W | YNL186W | UBP10 | ubiquitin-specific protease UBP10|DOT4 | Ubiquitin-specific protease, deubiquitinates Ub-protein moieties; interacts with proteins that function in rRNA production and ribosome biogenesis via its intrinsically disordered regions; stabilizes Rpa190p by deubiquitination; controls PCNA deubiquitylation; may regulate silencing by acting on Sir4p; involved in posttranscriptionally regulating Gap1p, possibly other transporters; localized to the nucleolus; null mutant phenotypes are functionally complemented by human USP36 | Core | NA | NA | NA |
| 6579-YNL187W | YNL187W | SWT21 | NA | Protein involved in mRNA splicing; contains a consensus nuclear export signal (NES) sequence similar to the consensus sequence recognized by Crm1p; interacts genetically with Prp40p and Tgs1p; contains WD40 repeats | Core | NA | NA | NA |
| 6580-YNL188W | YNL188W | KAR1 | NA | Protein involved in karyogamy and spindle pole body duplication; involved in karyogamy during mating; involved in spindle pole body duplication during mitosis; localizes to the half-bridge of the spindle pole body; interacts with Spc72p during karyogamy; also interacts with Cdc31p; essential gene | Core | NA | NA | NA |
| 6581-YNL189W | YNL189W | SRP1 | karyopherin alpha|SCM1|KAP60 | Karyopherin alpha homolog; forms a dimer with karyopherin beta Kap95p to mediate import of nuclear proteins, binds the nuclear localization signal of the substrate during import; involved in cotranslational protein degradation; binds ribosome-bound nascent polypeptides; Srp1p and Sts1p couple proteasomes to nascent polypeptides emerging from the ribosome for cotranslational degradation | Core | NA | NA | NA |
| 6582-YNL190W | YNL190W | NA | NA | Hydrophilin essential in desiccation-rehydration process; cell wall protein; contains a putative GPI-attachment site | Core | NA | NA | NA |
| 6583-YNL191W | YNL191W | DUG3 | glutamine amidotransferase subunit DUG3 | Component of glutamine amidotransferase (GATase II); forms a complex with Dug2p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p) | Core | NA | NA | NA |
| 6584-YNL192W | YNL192W | CHS1 | chitin synthase CHS1|USA4 | Chitin synthase I; requires activation from zymogenic form in order to catalyze the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for repairing the chitin septum during cytokinesis; transcription activated by mating factor | Core | NA | NA | NA |
| 6585-YNL193W | YNL193W | NA | NA | Putative protein of unknown function; exhibits a two-hybrid interaction with Yhr151cp in a large-scale analysis | Core | NA | NA | NA |
| 6586-YNL194C | YNL194C | NA | NA | Integral membrane protein; required for sporulation and plasma membrane sphingolipid content; similar to SUR7; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; GFP-fusion protein is more abundant at MCCs (membrane compartment occupied by Can1) in the presence of glycerol and oleate; YNL194C has a paralog, FMP45, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6587-YNL195C | YNL195C | NA | NA | Protein of unknown function; shares a promoter with YNL194C; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YNL195C has a paralog, HBT1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6588-YNL196C | YNL196C | SLZ1 | NA | Sporulation-specific protein with a leucine zipper motif; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation | Core | NA | NA | NA |
| 6589-YNL197C | YNL197C | WHI3 | mRNA-binding protein WHI3 | RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; regulates genes involved in the cell cycle, sister chromatid cohesion, and stress response; acts as a cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; Tpk1p (PKA) mediated phosphorylation (S568) inhibits Whi3p function, decreasing its interaction with CLN3 mRNA; regulates ploidy | Core | NA | NA | NA |
| 6590-YNL198C | YNL198C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 6591-YNL199C_NumOfGenes_2 | YNL199C | GCR2 | NA | Transcriptional activator of genes involved in glycolysis; interacts and functions with the DNA-binding protein Gcr1p | Core | NA | NA | NA |
| 6592-YNL200C_NumOfGenes_2 | YNL200C | NNR1 | NADHX epimerase | NADHX epimerase; catalyzes isomerization of (R)- and (S)-NADHX; homologous to AIBP in mammals and the N- terminal domain of YjeF in E.coli; enzyme is widespread in eukaryotes, prokaryotes and archaea; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |