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 |
|---|---|---|---|---|---|---|---|---|
| 4838-YJL143W | YJL143W | TIM17 | protein transporter TIM17|SMS1|MPI2|MIM17 | Essential component of the TIM23 complex; with Tim23p, contributes to the architecture and function of the import channel; may link the import motor to the core Translocase of the Inner Mitochondrial membrane (TIM23 complex) | Accessory | Ancestral | NA | NA |
| 4839-YJL144W | YJL144W | NA | NA | Cytoplasmic hydrophilin essential in desiccation-rehydration process; expression induced by osmotic stress, starvation and during stationary phase; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 4840-YJL145W | YJL145W | SFH5 | NA | Non-classical phosphatidylinositol transfer protein (PITP); exhibits PI- but not PC-transfer activity; localizes to the peripheral endoplasmic reticulum, cytosol and microsomes; similar to Sec14p; partially relocalizes to the plasma membrane upon DNA replication stress | Core | NA | NA | NA |
| 4841-YJL146W | YJL146W | IDS2 | NA | Protein involved in modulation of Ime2p activity during meiosis; appears to act indirectly to promote Ime2p-mediated late meiotic functions; found in growing cells and degraded during sporulation | Core | NA | NA | NA |
| 4842-YJL147C | YJL147C | MRX5 | NA | Protein that associates with mitochondrial ribosome; homozygous diploid deletion strain has a sporulation defect characterized by elevated dityrosine in the soluble fraction; expression induced by calcium shortage; YJL147W is a non-essential gene | Core | NA | NA | NA |
| 4843-YJL148W | YJL148W | RPA34 | DNA-directed RNA polymerase I subunit RPA34|CST21|A34.5 | RNA polymerase I subunit A34.5; essential for nucleolar assembly and for high polymerase loading rate; nucleolar localization depends on Rpa49p | Core | NA | NA | NA |
| 4844-YJL149W | YJL149W | DAS1 | DUH1|SCF ubiquitin ligase complex subunit DAS1 | Putative SCF ubiquitin ligase F-box protein; interacts physically with both Cdc53p and Skp1 and genetically with CDC34; similar to putative F-box protein YDR131C | Core | NA | NA | NA |
| 4845-YJL150W | YJL150W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 4846-YJL151C | YJL151C | SNA3 | NA | Protein involved in efficient MVB sorting of proteins to the vacuole; may function as an RSP5 adapter protein for MVB cargos; integral membrane protein localized to vacuolar intralumenal vesicles | Core | NA | NA | NA |
| 4847-YJL152W | YJL152W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Ancestral | NA | NA |
| 4848-YJL153C | YJL153C | INO1 | inositol-3-phosphate synthase INO1|APR1 | Inositol-3-phosphate synthase; involved in synthesis of inositol phosphates and inositol-containing phospholipids; transcription is coregulated with other phospholipid biosynthetic genes by Ino2p and Ino4p, which bind the UASINO DNA element | Core | NA | NA | NA |
| 4849-YJL154C | YJL154C | VPS35 | retromer subunit VPS35|VPT7|GRD9 | Endosomal subunit of membrane-associated retromer complex; required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p; overexpression of wild-type human VPS35 or Parkinson's-associated vps35-D686N or vps35-P299S variants complements Ni2+ resistance and Cd2+ sensitivity of yeast vps35 null mutant | Core | NA | NA | NA |
| 4850-YJL155C | YJL155C | FBP26 | fructose-2,6-bisphosphatase | Fructose-2,6-bisphosphatase, required for glucose metabolism; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 4851-YJL156C | YJL156C | SSY5 | RAA3 | Serine protease of SPS plasma membrane amino acid sensor system; contains an inhibitory domain that dissociates in response to extracellular amino acids, freeing a catalytic domain to activate transcription factor Stp1p; other members are Ssy1p and Ptr3p | Accessory | Ancestral | NA | NA |
| 4852-YJL156W-A | YJL156W-A | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |