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 |
|---|---|---|---|---|---|---|---|---|
| 6818-YOL019W-A | YOL019W-A | NA | NA | Protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Accessory | Ancestral | NA | NA |
| 6819-YOL020W | YOL020W | TAT2 | aromatic amino acid transmembrane transporter TAT2|TAP2|SCM2|SAB2|LTG3 | High affinity tryptophan and tyrosine permease; overexpression confers FK506 and FTY720 resistance | Core | NA | NA | NA |
| 6820-YOL021C | YOL021C | DIS3 | exosome catalytic subunit DIS3|MTR17|RRP44 | Exosome core complex catalytic subunit; has both endonuclease and 3'-5' exonuclease activity; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; role in degradation of tRNAs; similar to E. coli RNase R and to human DIS3, which partially complements dis3-81 heat sensitivity; mutations in Dis3p analogous to human mutations implicated in multiple myeloma impair exosome function; protein abundance increases under to DNA replication stress | Core | NA | NA | NA |
| 6821-YOL022C | YOL022C | TSR4 | NA | Cytoplasmic protein required for correct processing of 20S pre-rRNA; protein required for processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; essential gene in S288C background but not in CEN.PK2 | Core | NA | NA | NA |
| 6822-YOL023W | YOL023W | IFM1 | translation initiation factor 2 | Mitochondrial translation initiation factor 2 | Core | NA | NA | NA |
| 6823-YOL024W | YOL024W | NA | NA | Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site; YOL024W has a paralog, IGD1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6824-YOL025W | YOL025W | LAG2 | ECM36 | Protein that negatively regulates the SCF E3-ubiquitin ligase; regulates by interacting with and preventing neddyation of the cullin subunit, Cdc53p; longevity determinant that is preferentially expressed in young cells; similar to mammalian Cand1 | Core | NA | NA | NA |
| 6825-YOL026C | YOL026C | MIM1 | TOM13 | Mitochondrial protein required for outer membrane protein import; cooperates with Tom70p to import the subset of proteins with multiple alpha-helical transmembrane segments, including Ugo1p, Tom20p, and others; present in a complex with Mim2p in the outer membrane that may create a local environment to facilitate membrane insertion of substrate proteins; also has a role in assembly of Tom20p into the TOM complex | Core | NA | NA | NA |
| 6826-YOL027C | YOL027C | MDM38 | ribosome-binding protein MDM38|MKH1 | Mitochondrial protein; forms a complex with Mba1p to facilitate recruitment of mRNA-specific translational activators to ribosomes; roles in protein export and K+/H+ exchange; human ortholog Letm1 implicated in Wolf-Hirschhorn syndrome | Core | NA | NA | NA |
| 6827-YOL028C | YOL028C | YAP7 | NA | Putative basic leucine zipper (bZIP) transcription factor; YAP7 has a paralog, YAP5, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6828-YOL029C | YOL029C | NA | NA | Putative protein of unknown function; identified as interacting with Hsc82p and Hsp82p in high-throughput two-hybrid screens | Core | NA | NA | NA |
| 6829-YOL030W | YOL030W | GAS5 | 1,3-beta-glucanosyltransferase | 1,3-beta-glucanosyltransferase; has similarity to Gas1p; localizes to the cell wall | Core | NA | NA | NA |
| 6830-YOL031C | YOL031C | SIL1 | SLS1 | Nucleotide exchange factor for the ER lumenal Hsp70 chaperone Kar2p; required for protein translocation into the endoplasmic reticulum (ER); homolog of Yarrowia lipolytica SLS1; GrpE-like protein | Core | NA | NA | NA |
| 6831-YOL032W | YOL032W | OPI10 | NA | Protein with a possible role in phospholipid biosynthesis; null mutant displays an inositol-excreting phenotype that is suppressed by exogenous choline; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6832-YOL033W | YOL033W | MSE1 | glutamate--tRNA ligase MSE1 | Mitochondrial glutamyl-tRNA synthetase; predicted to be palmitoylated | Core | NA | NA | NA |