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 |
|---|---|---|---|---|---|---|---|---|
| 4223-YHL029C | YHL029C | OCA5 | NA | Cytoplasmic protein required for replication of Brome mosaic virus; S. cerevisiae is a model system for studying replication of positive-strand RNA viruses in their natural hosts | Accessory | Ancestral | NA | NA |
| 4224-YHL030W | YHL030W | ECM29 | NA | Scaffold protein; assists in association of the proteasome core particle with the regulatory particle; inhibits proteasomal ATPase activity; degraded by the mature proteasome after assembly; contains HEAT-like repeats; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 4225-YHL031C_NumOfGenes_3 | YHL031C | GOS1 | NA | v-SNARE protein involved in Golgi transport; homolog of the mammalian protein GOS-28/GS28 | Core | NA | NA | NA |
| 4226-YHL032C_NumOfGenes_2 | YHL032C | GUT1 | glycerol kinase | Glycerol kinase; converts glycerol to glycerol-3-phosphate; glucose repression of expression is mediated by Adr1p and Ino2p-Ino4p; derepression of expression on non-fermentable carbon sources is mediated by Opi1p and Rsf1p | Core | NA | NA | NA |
| 4227-YHL033C_NumOfGenes_3 | YHL033C | RPL8A | eL8|ribosomal 60S subunit protein L8A|L8e|rp6|YL5|L8A|L4A|MAK7 | Ribosomal 60S subunit protein L8A; required for processing of 27SA3 pre-rRNA to 27SB pre-rRNA during assembly of large ribosomal subunit; depletion leads to a turnover of pre-rRNA; L8 binds to Domain I of 25S and 5.8 S rRNAs; mutation results in decreased amounts of free 60S subunits; homologous to mammalian ribosomal protein L7A, no bacterial homolog; RPL8A has a paralog, RPL8B, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4228-YHL034C_NumOfGenes_2 | YHL034C | SBP1 | SSB1|SSBR1 | Protein that binds eIF4G and has a role in repression of translation; has an RGG motif; found in cytoplasmic P bodies; binds to mRNAs under glucose starvation stress, most often in the 5' UTR; found associated with small nucleolar RNAs snR10 and snR11; SBP1 has a paralog, RNP1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4229-YHL035C | YHL035C | VMR1 | putative ATP-binding cassette multidrug transporter VMR1 | Vacuolar membrane protein; involved in multiple drug resistance and metal sensitivity; ATP-binding cassette (ABC) family member involved in drug transport; potential Cdc28p substrate; induced under respiratory conditions; VMR1 has a paralog, YBT1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4230-YHL036W | YHL036W | MUP3 | NA | Low affinity methionine permease; similar to Mup1p | Core | NA | NA | NA |
| 4231-YHL037C | YHL037C | NA | NA | Putative protein of unknown function; conserved among S. cerevisiae strains | Core | NA | NA | NA |
| 4232-YHL038C | YHL038C | CBP2 | NA | Required for splicing of the group I intron bI5 of the COB pre-mRNA; nuclear-encoded mitochondrial protein that binds to the RNA to promote splicing; also involved in but not essential for splicing of the COB bI2 intron and the intron in the 21S rRNA gene | Core | NA | NA | NA |
| 4233-YHL039W | YHL039W | EFM1 | protein-lysine N-methyltransferase | Lysine methyltransferase; involved in the monomethylation of eEF1A (Tef1p/Tef2p); SET-domain family member; predicted involvement in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm | Core | NA | NA | NA |
| 4234-YHL040C | YHL040C | ARN1 | siderophore transporter | ARN family transporter for siderophore-iron chelates; responsible for uptake of iron bound to ferrirubin, ferrirhodin, and related siderophores; protein increases in abundance and relocalizes to the vacuole upon DNA replication stress | Core | NA | NA | NA |
| 4235-YHL041W | YHL041W | NA | NA | Putative protein of unknown function; conserved across S. cerevisiae strains | Core | NA | NA | NA |
| 4236-YHL042W | YHL042W | NA | NA | Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP and mCherry fusion proteins localize to the vacuole | Core | NA | NA | NA |
| 4237-YHL043W | YHL043W | ECM34 | NA | Protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins; SWAT-GFP, seamless-GFP and mCherry C-terminal fusion proteins localize to the cytosol | Core | NA | NA | NA |