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 |
|---|---|---|---|---|---|---|---|---|
| 4448-YHR187W | YHR187W | IKI1 | Elongator subunit IKI1|HAP2|ELP5|TOT5 | Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; iki1 mutations confer resistance to the K. lactis toxin zymocin | Core | NA | NA | NA |
| 4449-YHR188C | YHR188C | GPI16 | GPI-anchor transamidase subunit GPI16 | Subunit of the glycosylphosphatidylinositol transamidase complex; transmembrane protein; adds GPIs to newly synthesized proteins; human PIG-Tp homolog | Core | NA | NA | NA |
| 4450-YHR189W | YHR189W | PTH1 | aminoacyl-tRNA hydrolase|PTH | One of two mitochondrially-localized peptidyl-tRNA hydrolases; dispensable for respiratory growth on rich medium, but required for respiratory growth on minimal medium; see also PTH2 | Core | NA | NA | NA |
| 4451-YHR190W | YHR190W | ERG9 | bifunctional farnesyl-diphosphate farnesyltransferase/squalene synthase | Farnesyl-diphosphate farnesyl transferase (squalene synthase); joins two farnesyl pyrophosphate moieties to form squalene in the sterol biosynthesis pathway | Core | NA | NA | NA |
| 4452-YHR191C | YHR191C | CTF8 | NA | Subunit of a complex with Ctf18p; shares some subunits with Replication Factor C; required for sister chromatid cohesion | Core | NA | NA | NA |
| 4453-YHR192W | YHR192W | LNP1 | NA | Lunapark family member involved in ER network formation; regulates the ER asymmetry-induced inheritance block during ER stress; localizes to ER junctions and this localization is regulated by the yeast atlastin ortholog Sey1p; interacts with the reticulon protein Rtn1p; induced in response to the DNA-damaging agent MMS | Core | NA | NA | NA |
| 4454-YHR193C | YHR193C | EGD2 | NA | Alpha subunit of the nascent polypeptide-associated complex (NAC); involved in protein sorting and translocation; associated with cytoplasmic ribosomes | Core | NA | NA | NA |
| 4455-YHR194W_NumOfGenes_2 | YHR194W | MDM31 | NA | Mitochondrial protein that may have a role in phospholipid metabolism; inner membrane protein with similarity to Mdm32p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MMM2, MDM10, MDM12, and MDM34 | Core | NA | NA | NA |
| 4456-YHR195W | YHR195W | NVJ1 | VAB36 | Nuclear envelope protein; anchored to the nuclear inner membrane, that interacts with the vacuolar membrane protein Vac8p to promote formation of nucleus-vacuole junctions during piecemeal microautophagy of the nucleus (PMN) | Core | NA | NA | NA |
| 4457-YHR196W | YHR196W | UTP9 | NA | Nucleolar protein; component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA | Core | NA | NA | NA |
| 4458-YHR197W | YHR197W | RIX1 | IPI2 | Component of the Rix1 complex and possibly pre-replicative complexes; required for processing of ITS2 sequences from 35S pre-rRNA; component of the pre-60S ribosomal particle with the dynein-related AAA-type ATPase Mdn1p; required for pre-replicative complex (pre-RC) formation and maintenance during DNA replication licensing; relocalizes to the cytosol in response to hypoxia; essential gene | Core | NA | NA | NA |
| 4459-YHR198C | YHR198C | AIM18 | FMP22 | Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss | Core | NA | NA | NA |
| 4460-YHR199C | YHR199C | AIM46 | FMP34 | Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays elevated frequency of mitochondrial genome loss | Core | NA | NA | NA |
| 4461-YHR199C-A | YHR199C-A | NBL1 | MCL1 | Subunit of the conserved chromosomal passenger complex (CPC); complex regulates mitotic chromosome segregation; not required for the kinase activity of the complex; mediates the interaction of Sli15p and Bir1p; other complex members are Ipl1p, Sli15p, and Bir1p | Core | NA | NA | NA |
| 4462-YHR200W | YHR200W | RPN10 | proteasome regulatory particle base subunit RPN10|SUN1|MCB1 | Non-ATPase base subunit of the 19S RP of the 26S proteasome; N-terminus plays a role in maintaining the structural integrity of the regulatory particle (RP); binds selectively to polyubiquitin chains; homolog of the mammalian S5a protein | Core | NA | NA | NA |