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 |
|---|---|---|---|---|---|---|---|---|
| 4898-YJL205C | YJL205C | NCE101 | YJL205C-A|YJL206C-A|NCE1 | Protein of unknown function; involved in secretion of proteins that lack classical secretory signal sequences; SWAT-GFP and mCherry fusion proteins localize to the cytosol | Core | NA | NA | NA |
| 4899-YJL206C | YJL206C | NA | NA | Putative protein of unknown function; similar to transcriptional regulators from the Zn[2]-Cys[6] binuclear cluster protein family; mRNA is weakly cell cycle regulated, peaking in S phase; induced rapidly upon MMS treatment | Core | NA | NA | NA |
| 4900-YJL207C | YJL207C | LAA1 | NA | AP-1 accessory protein; colocalizes with clathrin to the late-Golgi apparatus; involved in TGN-endosome transport; physically interacts with AP-1; similar to the mammalian p200; may interact with ribosomes; YJL207C is a non-essential gene | Core | NA | NA | NA |
| 4901-YJL208C | YJL208C | NUC1 | ribonuclease | Major mitochondrial nuclease; has RNAse and DNA endo- and exonucleolytic activities; roles in mitochondrial recombination, apoptosis and maintenance of polyploidy; involved in fragmentation of genomic DNA during PND (programmed nuclear destruction); encodes ortholog of mammalian endoG | Core | NA | NA | NA |
| 4902-YJL209W | YJL209W | CBP1 | NA | Mitochondrial protein, regulator of COB mRNA stability and translation; interacts with the 5'-untranslated region of the COB mRNA; found in a complex at the inner membrane along with Pet309p; localizes to mitochondrial foci upon DNA replication stress | Core | NA | NA | NA |
| 4903-YJL210W | YJL210W | PEX2 | ubiquitin-protein ligase peroxin 2|PAS5|CRT1 | RING-finger peroxin and E3 ubiquitin ligase; peroxisomal membrane protein with a C-terminal zinc-binding RING domain, forms translocation subcomplex with Pex10p and Pex12p which functions in peroxisomal matrix protein import | Accessory | Ancestral | NA | NA |
| 4904-YJL211C | YJL211C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL210W/PEX2 | Accessory | Ancestral | NA | NA |
| 4905-YJL212C | YJL212C | OPT1 | oligopeptide transporter OPT1|GSH11|HGT1 | Proton-coupled oligopeptide transporter of the plasma membrane; also transports glutathione and phytochelatin; member of the OPT family | Accessory | Ancestral | NA | NA |
| 4906-YJL213W_NumOfGenes_2 | YJL213W | NA | NA | Protein of unknown function that may interact with ribosomes; periodically expressed during the yeast metabolic cycle; phosphorylated in vitro by the mitotic exit network (MEN) kinase complex, Dbf2p/Mob1p | Accessory | Ancestral | NA | NA |
| 4907-YJL214W_NumOfGenes_3 | YJL214W | HXT8 | hexose transporter HXT8 | Protein of unknown function with similarity to hexose transporters; expression is induced by low levels of glucose and repressed by high levels of glucose | Accessory | Ancestral | NA | NA |
| 4908-YJL215C_NumOfGenes_2 | YJL215C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Unknown | NA | NA |
| 4909-YJL216C | YJL216C | IMA5 | oligo-1,6-glucosidase IMA5 | Alpha-glucosidase; specificity for isomaltose, maltose, and palatinose, but not alpha-methylglucoside; most distant member of the IMA isomaltase family, but with similar catalytic properties as Ima1p and Ima2p; not required for isomaltose utilization, but Ima5p overexpression allows the ima1 null mutant to grow on isomaltose; can cleave alpha-1,3 linkage of nigerose and turanose and alpha-1,5 linkage of leucrose and is very sensitive to temperature in vitro | Accessory | Ancestral | NA | NA |
| 4910-YJL217W | YJL217W | REE1 | NA | Cytoplasmic protein involved in the regulation of enolase (ENO1); mRNA expression is induced by calcium shortage, copper deficiency (via Mac1p) and the presence of galactose (via Gal4p); mRNA expression is also regulated by the cell cycle | Accessory | Ancestral | NA | NA |
| 4911-YJL218W_NumOfGenes_2 | YJL218W | NA | acetyltransferase | Putative acetyltransferase; similar to bacterial galactoside O-acetyltransferases; induced by oleate in an OAF1/PIP2-dependent manner; promoter contains an oleate response element consensus sequence; non-essential gene | Accessory | Ancestral | NA | NA |
| 4912-YJL222W_NumOfGenes_5 | YJL222W | VTH2 | signal sequence-binding protein | Putative membrane glycoprotein; has strong similarity to Vth1p and Pep1p/Vps10p; may be involved in vacuolar protein sorting | Accessory | Unknown | S. paradoxus | NA |