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 |
|---|---|---|---|---|---|---|---|---|
| 5063-YJR155W_NumOfGenes_2 | YJR155W | AAD10 | putative aryl-alcohol dehydrogenase | Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role; members of the AAD gene family comprise three pairs (AAD3 + AAD15, AAD6/AAD16 + AAD4, AAD10 + AAD14) whose two genes are more related to one another than to other members of the family | Accessory | Ancestral | NA | NA |
| 5064-YJR157W | YJR157W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Unknown | NA | NA |
| 5065-YJR158W_NumOfGenes_2 | YJR158W | HXT16 | HLT3|hexose transporter HXT16 | Putative transmembrane polyol transporter; supports growth on and uptake of sorbitol with moderate affinity and mannitol with lower affinity when overexpressed in a strain deleted for hexose family members; minor hexose transport activity when overexpressed in a similar strain; similarity to hexose transporters; expression is repressed by high levels of glucose | Accessory | Ancestral | NA | NA |
| 5066-YJR159W_NumOfGenes_2 | YJR159W | SOR1 | L-iditol 2-dehydrogenase SOR1|SDH1 | Sorbitol dehydrogenase; protein sequence is 99% identical to the Sor2p sorbitol dehydrogenase; expression is induced in the presence of sorbitol or xylose | Accessory | Ancestral | NA | NA |
| 5067-YKL001C | YKL001C | MET14 | adenylyl-sulfate kinase | Adenylylsulfate kinase; required for sulfate assimilation and involved in methionine metabolism; human homolog PAPSS2 complements yeast null mutant | Core | NA | NA | NA |
| 5068-YKL002W | YKL002W | DID4 | ESCRT-III subunit protein DID4|VPS14|CHM2|VPS2|VPT14|VPL2|REN1|GRD7 | Class E Vps protein of the ESCRT-III complex; required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis | Core | NA | NA | NA |
| 5069-YKL003C | YKL003C | MRP17 | mitochondrial 37S ribosomal protein YmS16 | Mitochondrial ribosomal protein of the small subunit; MRP17 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator | Core | NA | NA | NA |
| 5070-YKL004W | YKL004W | AUR1 | inositol phosphorylceramide synthase | Phosphatidylinositol:ceramide phosphoinositol transferase; required for sphingolipid synthesis; can mutate to confer aureobasidin A resistance; also known as IPC synthase | Core | NA | NA | NA |
| 5071-YKL005C | YKL005C | BYE1 | NA | Negative regulator of transcription elongation; contains a TFIIS-like domain that associates with chromatin and a PHD domain that interacts with H3K4me3; multicopy suppressor of temperature-sensitive ess1 mutations, binds RNA polymerase II large subunit | Core | NA | NA | NA |
| 5072-YKL006C-A | YKL006C-A | SFT1 | NA | Intra-Golgi v-SNARE; required for transport of proteins between an early and a later Golgi compartment | Core | NA | NA | NA |
| 5073-YKL006W | YKL006W | RPL14A | eL14|ribosomal 60S subunit protein L14A|L14e|L14A | Ribosomal 60S subunit protein L14A; N-terminally acetylated; homologous to mammalian ribosomal protein L14, no bacterial homolog; RPL14A has a paralog, RPL14B, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5074-YKL007W | YKL007W | CAP1 | NA | Alpha subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress | Core | NA | NA | NA |
| 5075-YKL008C_NumOfGenes_2 | YKL008C | LAC1 | sphingosine N-acyltransferase LAC1|DGT1 | Ceramide synthase component; involved in synthesis of ceramide from C26(acyl)-coenzyme A and dihydrosphingosine or phytosphingosine, functionally equivalent to Lag1p; LAC1 has a paralog, LAG1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 5076-YKL009W | YKL009W | MRT4 | NA | Protein involved in mRNA turnover and ribosome assembly; required at post-transcriptional step for efficient retrotransposition; localizes to the nucleolus | Core | NA | NA | NA |
| 5077-YKL010C | YKL010C | UFD4 | putative ubiquitin-protein ligase UFD4 | Ubiquitin-protein ligase (E3); interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins; relative distribution to the nucleus increases upon DNA replication stress | Core | NA | NA | NA |