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 |
|---|---|---|---|---|---|---|---|---|
| 4268-YHR021W-A | YHR021W-A | ECM12 | NA | Putative protein of unknown function; may contribute to cell wall biosynthesis, mutants display zymolyase hypersensitivity | Core | NA | NA | NA |
| 4269-YHR022C | YHR022C | NA | NA | Putative protein of unknown function; YHR022C is not an essential gene | Core | NA | NA | NA |
| 4270-YHR022C-A | YHR022C-A | NA | NA | Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Core | NA | NA | NA |
| 4271-YHR023W | YHR023W | MYO1 | myosin 1 | Type II myosin heavy chain; required for wild-type cytokinesis and cell separation; localizes to the actomyosin ring; binds to myosin light chains Mlc1p and Mlc2p through its IQ1 and IQ2 motifs respectively | Core | NA | NA | NA |
| 4272-YHR024C | YHR024C | MAS2 | mitochondrial-processing protease subunit alpha|MIF2 | Alpha subunit of the mitochondrial processing protease (MPP); essential processing enzyme that cleaves the N-terminal targeting sequences from mitochondrially imported proteins | Core | NA | NA | NA |
| 4273-YHR025W | YHR025W | THR1 | homoserine kinase | Homoserine kinase; conserved protein required for threonine biosynthesis; long-lived protein that is preferentially retained in mother cells and forms cytoplasmic filaments; expression is regulated by the GCN4-mediated general amino acid control pathway | Core | NA | NA | NA |
| 4274-YHR026W | YHR026W | VMA16 | H(+)-transporting V0 sector ATPase subunit c''|PPA1 | Subunit c'' of the vacuolar ATPase; v-ATPase functions in acidification of the vacuole; one of three proteolipid subunits of the V0 domain | Core | NA | NA | NA |
| 4275-YHR027C | YHR027C | RPN1 | proteasome regulatory particle base subunit RPN1|NAS1|HRD2 | Non-ATPase base subunit of the 19S RP of the 26S proteasome; may participate in the recognition of several ligands of the proteasome; contains a leucine-rich repeat (LRR) domain, a site for protein-protein interactions; RP is the acronym for regulatory particle | Core | NA | NA | NA |
| 4276-YHR028C | YHR028C | DAP2 | DPP2 | Dipeptidyl aminopeptidase; synthesized as a glycosylated precursor; localizes to the vacuolar membrane; similar to Ste13p | Core | NA | NA | NA |
| 4277-YHR028W-A | YHR028W-A | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps ORF DAP2/YHR028C | Accessory | Ancestral | NA | NA |
| 4278-YHR029C | YHR029C | YHI9 | NA | Protein of unknown function; null mutant is defective in unfolded protein response; possibly involved in a membrane regulation metabolic pathway; member of the PhzF superfamily, though most likely not involved in phenazine production | Core | NA | NA | NA |
| 4279-YHR030C | YHR030C | SLT2 | mitogen-activated serine/threonine-protein kinase SLT2|LYT2|SLK2|MPK1|BYC2 | Serine/threonine MAP kinase; coordinates expression of all 19S regulatory particle assembly-chaperones (RACs) to control proteasome abundance; involved in regulating maintenance of cell wall integrity, cell cycle progression, nuclear mRNA retention in heat shock, septum assembly; required for mitophagy, pexophagy; affects recruitment of mitochondria to phagophore assembly site; plays role in adaptive response of cells to cold; regulated by the PKC1-mediated signaling pathway | Core | NA | NA | NA |
| 4280-YHR031C | YHR031C | RRM3 | RTT104 | DNA helicase involved in rDNA replication and Ty1 transposition; binds to and suppresses DNA damage at G4 motifs in vivo; relieves replication fork pauses at telomeric regions; structurally and functionally related to Pif1p | Core | NA | NA | NA |
| 4281-YHR032C-A_NumOfGenes_2 | YHR032C-A | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YHR032W-A | Accessory | Unknown | NA | NA |
| 4282-YHR032W | YHR032W | ERC1 | NA | Member of the multi-drug and toxin extrusion (MATE) family; the MATE family is part of the multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) exporter superfamily; overproduction confers ethionine resistance and accumulation of S-adenosylmethionine | Core | NA | NA | NA |