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 |
|---|---|---|---|---|---|---|---|---|
| 5423-YLL022C | YLL022C | HIF1 | NA | Non-essential component of the HAT-B histone acetyltransferase complex; localized to the nucleus; has a role in telomeric silencing; other members are Hat1p and Hat2p | Core | NA | NA | NA |
| 5424-YLL023C | YLL023C | POM33 | nucleoporin POM33 | Transmembrane nucleoporin; involved in nuclear pore complex (NPC) distribution, assembly or stabilization; highly conserved across species, orthologous to human TMEM33 and paralogous to Per33p; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 5425-YLL025W | YLL025W | PAU17 | seripauperin PAU17 | Protein of unknown function; member of the seripauperin multigene family encoded mainly in subtelomeric regions; SWAT-GFP and mCherry fusion proteins localize to the vacuole; YLL025W is not an essential gene | Accessory | Ancestral | NA | NA |
| 5426-YLL026W | YLL026W | HSP104 | chaperone ATPase HSP104 | Disaggregase; heat shock protein that cooperates with Ydj1p (Hsp40) and Ssa1p (Hsp70) to refold and reactivate previously denatured, aggregated proteins; responsive to stresses including: heat, ethanol, and sodium arsenite; involved in [PSI+] propagation; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress; potentiated Hsp104p variants decrease TDP-43 proteotoxicity by eliminating its cytoplasmic aggregation | Core | NA | NA | NA |
| 5427-YLL027W | YLL027W | ISA1 | Fe-binding Fe/S cluster assembly protein ISA1 | Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa2p and possibly Iba57p; isa1 deletion causes loss of mitochondrial DNA and respiratory deficiency; depletion reduces growth on nonfermentable carbon sources; functional ortholog of bacterial A-type ISC proteins; human ISCA1 can complement isa1 null mutant | Core | NA | NA | NA |
| 5428-YLL028W | YLL028W | TPO1 | NA | Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; recognizes spermine, putrescine, and spermidine; catalyzes uptake of polyamines at alkaline pH and excretion at acidic pH; during oxidative stress exports spermine, spermidine from the cell, which controls timing of expression of stress-responsive genes; phosphorylation enhances activity and sorting to the plasma membrane | Core | NA | NA | NA |
| 5429-YLL029W | YLL029W | FRA1 | RUP2 | Protein involved in negative regulation of iron regulon transcription; forms an iron independent complex with Fra2p, Grx3p, and Grx4p; cytosolic; mutant fails to repress transcription of iron regulon and is defective in spore formation | Core | NA | NA | NA |
| 5430-YLL030C | YLL030C | RRT7 | NA | Putative protein of unknown function; conserved across S. cerevisiae strains; identified in a screen for mutants with increased levels of rDNA transcription | Core | NA | NA | NA |
| 5431-YLL031C | YLL031C | GPI13 | mannose-ethanolamine phosphotransferase GPI13|MPC1 | ER membrane localized phosphoryltransferase; adds phosphoethanolamine onto the third mannose residue of the glycosylphosphatidylinositol (GPI) anchor precursor; similar to human PIG-O protein | Core | NA | NA | NA |
| 5432-YLL032C | YLL032C | NA | NA | Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLL032C is not an essential gene | Core | NA | NA | NA |
| 5433-YLL033W | YLL033W | IRC19 | RRG4|GON2 | Protein of unknown function; YLL033W is not an essential gene but mutant is defective in spore formation; null mutant displays increased levels of spontaneous Rad52p foci | Core | NA | NA | NA |
| 5434-YLL034C | YLL034C | RIX7 | putative AAA family ATPase RIX7 | Putative ATPase of the AAA family; required for export of pre-ribosomal large subunits from the nucleus; distributed between the nucleolus, nucleoplasm, and nuclear periphery depending on growth conditions | Core | NA | NA | NA |
| 5435-YLL035W | YLL035W | GRC3 | polynucleotide 5'-hydroxyl-kinase | Polynucleotide kinase present on rDNA; required for efficient transcription termination by RNA polymerase I; functions with Las1p in a conserved mechanism to modulate rRNA processing and ribosome biogenesis; required for cell growth; mRNA is cell-cycle regulated | Core | NA | NA | NA |
| 5436-YLL036C | YLL036C | PRP19 | E3 ubiquitin-protein ligase PRP19|PSO4 | Splicing factor associated with the spliceosome; contains a U-box, a motif found in a class of ubiquitin ligases, and a WD40 domain; relocalizes to the cytosol in response to hypoxia | Core | NA | NA | NA |
| 5437-YLL037W | YLL037W | NA | NA | Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential PRP19 gene encoding an RNA splicing factor | Core | NA | NA | NA |