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 |
|---|---|---|---|---|---|---|---|---|
| 6113-YMR056C | YMR056C | AAC1 | ADP/ATP carrier protein AAC1 | Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; phosphorylated; Aac1p is a minor isoform while Pet9p is the major ADP/ATP translocator; relocalizes from mitochondrion to cytoplasm upon DNA replication stress | Core | NA | NA | NA |
| 6114-YMR057C | YMR057C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps verified ORF AAC1 | Core | NA | NA | NA |
| 6115-YMR058W | YMR058W | FET3 | ferroxidase FET3 | Ferro-O2-oxidoreductase; multicopper oxidase that oxidizes ferrous (Fe2+) to ferric iron (Fe3+) for subsequent cellular uptake by transmembrane permease Ftr1p; required for high-affinity iron uptake and involved in mediating resistance to copper ion toxicity, belongs to class of integral membrane multicopper oxidases; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6116-YMR059W | YMR059W | SEN15 | NA | Subunit of the tRNA splicing endonuclease; tRNA splicing endonuclease (Sen complex) is composed of Sen2p, Sen15p, Sen34p, and Sen54p; Sen complex also cleaves the CBP1 mRNA at the mitochondrial surface | Core | NA | NA | NA |
| 6117-YMR060C | YMR060C | SAM37 | SAM complex subunit SAM37|TOM37|PET3027|MAS37 | Component of the Sorting and Assembly Machinery (SAM) complex; the SAM (or TOB) complex is located in the mitochondrial outer membrane; binds precursors of beta-barrel proteins and facilitates their outer membrane insertion; contributes to SAM complex stability | Core | NA | NA | NA |
| 6118-YMR061W | YMR061W | RNA14 | cleavage polyadenylation factor subunit RNA14 | Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; bridges interaction between Rna15p and Hrp1p in the CF I complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability; relocalizes to the cytosol in response to hypoxia | Core | NA | NA | NA |
| 6119-YMR062C | YMR062C | ARG7 | glutamate N-acetyltransferase|ECM40 | Mitochondrial ornithine acetyltransferase; catalyzes the fifth step in arginine biosynthesis; also possesses acetylglutamate synthase activity, regenerates acetylglutamate while forming ornithine | Core | NA | NA | NA |
| 6120-YMR063W | YMR063W | RIM9 | NA | Plasma membrane protein of unknown function; involved in the proteolytic activation of Rim101p in response to alkaline pH; interacts with Rim21p and Dfg16p to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; has similarity to A. nidulans PalI; | Core | NA | NA | NA |
| 6121-YMR064W | YMR064W | AEP1 | NCA1 | Protein required for expression of the mitochondrial OLI1 gene; mitochondrial OLI1 gene encodes subunit 9 of F1-F0 ATP synthase | Core | NA | NA | NA |
| 6122-YMR065W | YMR065W | KAR5 | FIG3 | Protein required for nuclear membrane fusion during karyogamy; localizes to the membrane with a soluble portion in the endoplasmic reticulum lumen, may form a complex with Jem1p and Kar2p; similar to zebrafish Brambleberry protein; expression of the gene is regulated by pheromone | Core | NA | NA | NA |
| 6123-YMR066W | YMR066W | SOV1 | NA | Mitochondrial protein of unknown function | Core | NA | NA | NA |
| 6124-YMR067C | YMR067C | UBX4 | CUI1 | UBX domain-containing protein that interacts with Cdc48p; involved in degradation of polyubiquitinated proteins via the ERAD (ER-associated degradation) pathway; modulates the Cdc48p-Nplp-Ufd1p AAA ATPase complex during its role in delivery of misfolded proteins to the proteasome; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6125-YMR068W | YMR068W | AVO2 | NA | Component of a complex containing the Tor2p kinase and other proteins; complex may have a role in regulation of cell growth | Core | NA | NA | NA |
| 6126-YMR069W | YMR069W | NAT4 | NAA40 | N alpha-acetyl-transferase; involved in acetylation of the N-terminal residues of histones H4 and H2A | Core | NA | NA | NA |
| 6127-YMR070W | YMR070W | MOT3 | [MOT3]|[MOT3+]|ROX7 | Transcriptional repressor, activator; role in cellular adjustment to osmotic stress including modulation of mating efficiency; involved in repression of subset of hypoxic genes by Rox1p, repression of several DAN/TIR genes during aerobic growth, ergosterol biosynthetic genes in response to hyperosmotic stress; contributes to recruitment of Tup1p-Cyc8p general repressor to promoters; relocalizes to cytosol under hypoxia; forms [MOT3+] prion under anaerobic conditions | Core | NA | NA | NA |