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 |
|---|---|---|---|---|---|---|---|---|
| 6698-YNL312W | YNL312W | RFA2 | RPA32|RPA2|BUF1 | Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; in concert with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication s | Core | NA | NA | NA |
| 6699-YNL313C | YNL313C | EMW1 | tetratricopeptide repeat-containing protein EMW1 | Essential conserved protein with a role in cell wall integrity; contains six TPR (tetratricopeptide repeat) domains clustered in the C-terminal region; conditional mutant is suppressed by overexpression of GFA1; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6700-YNL314W | YNL314W | DAL82 | DURM | Positive regulator of allophanate inducible genes; binds a dodecanucleotide sequence upstream of all genes that are induced by allophanate; contains an UISALL DNA-binding, a transcriptional activation, and a coiled-coil domain | Core | NA | NA | NA |
| 6701-YNL315C | YNL315C | ATP11 | NA | Molecular chaperone; required for the assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase; N-terminally propionylated in vivo | Core | NA | NA | NA |
| 6702-YNL316C | YNL316C | PHA2 | prephenate dehydratase PHA2 | Prephenate dehydratase; catalyzes the conversion of prephanate to phenylpyruvate, which is a step in the phenylalanine biosynthesis pathway | Core | NA | NA | NA |
| 6703-YNL317W | YNL317W | PFS2 | cleavage polyadenylation factor subunit PFS2 | Integral subunit of the pre-mRNA CPF complex; the cleavage and polyadenylation factor (CPF) complex plays an essential role in mRNA 3'-end formation by bridging different processing factors and thereby promoting the assembly of the processing complex | Core | NA | NA | NA |
| 6704-YNL318C_NumOfGenes_2 | YNL318C | HXT14 | NA | Protein with similarity to hexose transporter family members; expression is induced in low glucose and repressed in high glucose; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |
| 6705-YNL320W | YNL320W | NA | NA | Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |
| 6706-YNL321W | YNL321W | VNX1 | NA | Calcium/H+ antiporter localized to the endoplasmic reticulum membrane; member of the calcium exchanger (CAX) family; potential Cdc28p substrate | Core | NA | NA | NA |
| 6707-YNL322C | YNL322C | KRE1 | NA | Cell wall glycoprotein involved in beta-glucan assembly; serves as a K1 killer toxin membrane receptor | Core | NA | NA | NA |
| 6708-YNL323W | YNL323W | LEM3 | ROS3|BRE3 | Membrane protein of the plasma membrane and ER; interacts specifically in vivo with the phospholipid translocase (flippase) Dnf1p; involved in translocation of phospholipids and alkylphosphocholine drugs across the plasma membrane; null mutant requires tryptophan due to mislocalization of tryptophan permease Tat2p | Core | NA | NA | NA |
| 6709-YNL325C_NumOfGenes_2 | YNL325C | FIG4 | phosphatidylinositol-3,5-bisphosphate 5-phosphatase | Phosphatidylinositol 3,5-bisphosphate (PtdIns[3,5]P) phosphatase; required for efficient mating and response to osmotic shock; physically associates with and regulated by Vac14p; contains a SAC1-like domain; homologous to human FIG4, which is associated with CMT4J, a form of Charcot-Marie-Tooth disorder | Core | NA | NA | NA |
| 6710-YNL326C | YNL326C | PFA3 | palmitoyltransferase PFA3 | Palmitoyltransferase for Vac8p; required for vacuolar membrane fusion; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; autoacylates; required for vacuolar integrity under stress conditions | Core | NA | NA | NA |
| 6711-YNL327W | YNL327W | EGT2 | NA | Glycosylphosphatidylinositol (GPI)-anchored cell wall endoglucanase; required for proper cell separation after cytokinesis; expression is activated by Swi5p and tightly regulated in a cell cycle-dependent manner | Core | NA | NA | NA |
| 6712-YNL328C | YNL328C | MDJ2 | NA | Constituent of the mitochondrial import motor; associated with the presequence translocase; function overlaps with that of Pam18p; stimulates the ATPase activity of Ssc1p to drive mitochondrial import; contains a J domain | Core | NA | NA | NA |