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 |
|---|---|---|---|---|---|---|---|---|
| 6998-YOR030W | YOR030W | DFG16 | ZRG12|ECM41 | Probable multiple transmembrane protein; involved in diploid invasive and pseudohyphal growth upon nitrogen starvation; is glycosylated and phosphorylated; interacts with Rim21p and Rim9p in the plasma membrane to form a pH-sensing complex in the Rim101 pathway and is required to maintain Rim21p levels; required for accumulation of processed Rim101p | Core | NA | NA | NA |
| 6999-YOR031W | YOR031W | CRS5 | metallothionein CRS5 | Copper-binding metallothionein; required for wild-type copper resistance | Core | NA | NA | NA |
| 7000-YOR032C | YOR032C | HMS1 | NA | bHLH protein with similarity to myc-family transcription factors; overexpression confers hyperfilamentous growth and suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant | Core | NA | NA | NA |
| 7001-YOR032W-A | YOR032W-A | NA | NA | Protein of unknown function; SWAT-GFP and seamless-GFP fusion proteins localize to the endoplasmic reticulum; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching | Core | NA | NA | NA |
| 7002-YOR033C | YOR033C | EXO1 | Rad2 family nuclease EXO1|DHS1 | 5'-3' exonuclease and flap-endonuclease; involved in recombination, double-strand break repair, MMS2 error-free branch of the post replication (PRR) pathway and DNA mismatch repair; role in telomere maintenance; member of the Rad2p nuclease family, with conserved N and I nuclease domains; relative distribution to the nucleus increases upon DNA replication stress; EXO1 has a paralog, DIN7, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7003-YOR034C | YOR034C | AKR2 | putative palmitoyltransferase AKR2 | Ankyrin repeat-containing protein; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; possibly involved in constitutive endocytosis of Ste3p; AKR2 has a paralog, AKR1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7004-YOR034C-A | YOR034C-A | NA | NA | Putative protein of unknown function; identified by expression profiling and mass spectrometry | Core | NA | NA | NA |
| 7005-YOR035C | YOR035C | SHE4 | DIM1 | Protein containing a UCS (UNC-45/CRO1/SHE4) domain; binds to myosin motor domains to regulate myosin function; involved in endocytosis, polarization of the actin cytoskeleton, and asymmetric mRNA localization | Core | NA | NA | NA |
| 7006-YOR036W | YOR036W | PEP12 | SNAP receptor PEP12|VPT13|VPS6|VPL6 | Target membrane receptor (t-SNARE); for vesicular intermediates traveling between the Golgi apparatus and the vacuole; controls entry of biosynthetic, endocytic, and retrograde traffic into the prevacuolar compartment; syntaxin | Core | NA | NA | NA |
| 7007-YOR037W | YOR037W | CYC2 | oxidoreductase | Mitochondrial peripheral inner membrane protein; contains a FAD cofactor in a domain exposed in the intermembrane space; exhibits redox activity in vitro; likely participates in ligation of heme to acytochromes c and c1 (Cyc1p and Cyt1p) | Core | NA | NA | NA |
| 7008-YOR038C | YOR038C | HIR2 | SPT1 | Subunit of HIR nucleosome assembly complex; involved in regulation of histone gene transcription; recruits Swi-Snf complexes to histone gene promoters; promotes heterochromatic gene silencing with Asf1p; relocalizes to the cytosol in response to hypoxia | Core | NA | NA | NA |
| 7009-YOR039W | YOR039W | CKB2 | casein kinase 2 regulatory subunit CKB2 | Beta' regulatory subunit of casein kinase 2 (CK2); a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerase | Core | NA | NA | NA |
| 7010-YOR040W | YOR040W | GLO4 | hydroxyacylglutathione hydrolase GLO4 | Mitochondrial glyoxalase II; catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate; GLO4 has a paralog, GLO2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7011-YOR042W_NumOfGenes_2 | YOR042W | CUE5 | ubiquitin-binding protein CUE5 | Ubiquitin-binding protein; functions as ubiquitin-Atg8p adaptor in ubiquitin-dependent autophagy; serves as proteaphagy receptor for inactivated 26S proteasomes; contains CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; CUE5 has a paralog, DON1, that arose from the whole genome duplication; human TOLLIP is a functional CUE-domain homolog, can complement yeast null mutant, rescuing hypersensitivity of cue5 null mutant cells to Htt-96Q | Core | NA | NA | NA |
| 7012-YOR043W | YOR043W | WHI2 | NA | Protein required for full activation of the general stress response; required with binding partner Psr1p, possibly through Msn2p dephosphorylation; regulates growth during the diauxic shift; negative regulator of G1 cyclin expression; SWAT-GFP, seamless-GFP and mCherry fusion proteins localize to the cell periphery | Core | NA | NA | NA |