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 |
|---|---|---|---|---|---|---|---|---|
| 7718-YPR097W | YPR097W | NA | NA | Protein that contains a PX domain and binds phosphoinositides; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; PX stands for Phox homology | Core | NA | NA | NA |
| 7719-YPR098C | YPR098C | NA | NA | Protein of unknown function; localized to the mitochondrial outer membrane | Core | NA | NA | NA |
| 7720-YPR100W_NumOfGenes_2 | YPR100W | MRPL51 | mitochondrial 54S ribosomal protein MRPL51 | Mitochondrial ribosomal protein of the large subunit | Core | NA | NA | NA |
| 7721-YPR101W | YPR101W | SNT309 | NTC25 | Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; interacts physically and genetically with Prp19p | Core | NA | NA | NA |
| 7722-YPR102C_NumOfGenes_2 | YPR102C | RPL11A | uL5|ribosomal 60S subunit protein L11A|rp39A|YL22|L5|L16B|L11A | Ribosomal 60S subunit protein L11A; expressed at twice the level of Rpl11Bp; involved in ribosomal assembly; depletion causes degradation of 60S proteins and RNA; homologous to mammalian ribosomal protein L11 and bacterial L5; RPL11A has a paralog, RPL11B, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7723-YPR103W_NumOfGenes_2 | YPR103W | PRE2 | proteasome core particle subunit beta 5|SRR2|PRG1|DOA3 | Beta 5 subunit of the 20S proteasome; responsible for the chymotryptic activity of the proteasome | Core | NA | NA | NA |
| 7724-YPR104C_NumOfGenes_2 | YPR104C | FHL1 | SPP42 | Regulator of ribosomal protein (RP) transcription; has forkhead associated domain that binds phosphorylated proteins; recruits coactivator Ifh1p or corepressor Crf1p to RP gene promoters; also has forkhead DNA-binding domain though in vitro DNA binding assays give inconsistent results; computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p motifs at others; suppresses RNA pol III and splicing factor prp4 mutants | Core | NA | NA | NA |
| 7725-YPR105C | YPR105C | COG4 | Golgi transport complex subunit COG4|SGF1|SEC38|COD1 | Essential component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments | Accessory | Ancestral | NA | NA |
| 7726-YPR106W | YPR106W | ISR1 | putative protein kinase ISR1 | Predicted protein kinase; overexpression causes sensitivity to staurosporine, which is a potent inhibitor of protein kinase C | Accessory | Ancestral | NA | NA |
| 7727-YPR107C | YPR107C | YTH1 | cleavage polyadenylation factor RNA-binding subunit YTH1 | Essential RNA-binding component of cleavage and polyadenylation factor; contains five zinc fingers; required for pre-mRNA 3'-end processing and polyadenylation; relocalizes to the cytosol in response to hypoxia | Accessory | Ancestral | NA | NA |
| 7728-YPR108W | YPR108W | RPN7 | proteasome regulatory particle lid subunit RPN7 | Essential non-ATPase regulatory subunit of the 26S proteasome; similar to another S. cerevisiae regulatory subunit, Rpn5p, as well as to mammalian proteasome subunits | Accessory | Ancestral | NA | NA |
| 7729-YPR108W-A | YPR108W-A | NA | NA | Putative protein of unknown function; identified by fungal homology and RT-PCR | Accessory | Unknown | S. paradoxus | NA |
| 7730-YPR109W | YPR109W | NA | NA | Predicted membrane protein; SWAT-GFP and mCherry fusion proteins localize to the endoplasmic reticulum; diploid deletion strain has high budding index | Accessory | Ancestral | NA | NA |
| 7731-YPR110C | YPR110C | RPC40 | DNA-directed RNA polymerase core subunit RPC40|RPC5 | RNA polymerase subunit AC40; common to RNA polymerase I and III; predominant determinant targeting Ty1 integration upstream of Pol III-transcribed genes | Core | NA | NA | NA |
| 7732-YPR111W | YPR111W | DBF20 | serine/threonine-protein kinase DBF20 | Ser/Thr kinase involved in late nuclear division; one of the mitotic exit network (MEN) proteins; necessary for the execution of cytokinesis; also plays a role in regulating the stability of SWI5 and CLB2 mRNAs; DBF20 has a paralog, DBF2, that arose from the whole genome duplication | Core | NA | NA | NA |