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 |
|---|---|---|---|---|---|---|---|---|
| 6188-YMR127C | YMR127C | SAS2 | KAT8 | Histone acetyltransferase (HAT) catalytic subunit of the SAS complex; acetylates free histones and nucleosomes and regulates transcriptional silencing; member of the MYSTacetyltransferase family; other members are Sas4p and Sas5p | Core | NA | NA | NA |
| 6189-YMR128W | YMR128W | ECM16 | ATP-dependent RNA helicase ECM16|DHR1 | Essential DEAH-box ATP-dependent RNA helicase specific to U3 snoRNP; predominantly nucleolar in distribution; required for 18S rRNA synthesis | Core | NA | NA | NA |
| 6190-YMR129W | YMR129W | POM152 | NA | Glycoprotein subunit of transmembrane ring of nuclear pore complex; contributes to nucleocytoplasmic transport, nuclear pore complex (NPC) biogenesis and spindle pole body duplication; homologous to human NUP210 | Core | NA | NA | NA |
| 6191-YMR130W | YMR130W | NA | NA | Putative protein of unknown function; YMR130W is not an essential gene | Core | NA | NA | NA |
| 6192-YMR131C | YMR131C | RRB1 | ribosome biosynthesis protein RRB1 | Specific chaperone for ribosomal protein Rpl3p; binds to nascent Rpl3p during translation; essential gene | Core | NA | NA | NA |
| 6193-YMR132C | YMR132C | JLP2 | NA | Protein of unknown function; contains sequence that closely resembles a J domain (typified by the E. coli DnaJ protein) | Accessory | Ancestral | NA | NA |
| 6194-YMR133W | YMR133W | REC114 | NA | Protein involved in early stages of meiotic recombination; possibly involved in the coordination of recombination and meiotic division; mutations lead to premature initiation of the first meiotic division | Core | NA | NA | NA |
| 6195-YMR134W | YMR134W | ERG29 | NA | Protein of unknown function involved in ergosterol biosynthesis; conditional mutants produce less ergosterol, display impaired oxygen consumption, respiratory growth, mitochondrial iron utilization, and are more sensitive to oxidative stress; mutant bm-8 has a growth defect on iron-limited medium that is complemented by overexpression of Yfh1p; protein localizes to the cytoplasm, ER and nuclear envelope; highly conserved in ascomycetes | Core | NA | NA | NA |
| 6196-YMR135C | YMR135C | GID8 | glucose-induced degradation complex subunit GID8|DCR1 | Subunit of GID Complex, binds strongly to central component Vid30p; GID Complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; recruits Rmd5p, Fyv10 and Vid28p to GID Complex; contains LisH, CTLH, and CRA domains that mediate binding to Vid30p (LisH) and Rmd5p and Vid28p (CTLH and CRA); dosage-dependent regulator of START | Core | NA | NA | NA |
| 6197-YMR135W-A | YMR135W-A | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 6198-YMR136W | YMR136W | GAT2 | NA | Protein containing GATA family zinc finger motifs; similar to Gln3p and Dal80p; expression repressed by leucine | Core | NA | NA | NA |
| 6199-YMR137C | YMR137C | PSO2 | SNM1 | Nuclease required for DNA single- and double-strand break repair; acts at a post-incision step in repair of breaks that result from interstrand cross-links produced by a variety of mono- and bi-functional psoralen derivatives; induced by UV-irradiation; forms nuclear foci upon DNA replication stress | Core | NA | NA | NA |
| 6200-YMR138W | YMR138W | CIN4 | Arf family GTPase CIN4|UGX1|GTP1 | GTP-binding protein involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl; regulated by the GTPase-activating protein, Cin2p, the human retinitis pigmentosa 2 (RP2) homolog | Core | NA | NA | NA |
| 6201-YMR139W | YMR139W | RIM11 | serine/threonine protein kinase RIM11|MDS1|GSK3 | Protein kinase; required for signal transduction during entry into meiosis; promotes the formation of the Ime1p-Ume6p complex by phosphorylating Ime1p and Ume6p; shares similarity with mammalian glycogen synthase kinase 3-beta; protein abundance increases in response to DNA replication stress; RIM11 has a paralog, MRK1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6202-YMR140W | YMR140W | SIP5 | NA | Protein of unknown function; interacts with both the Reg1p/Glc7p phosphatase and the Snf1p kinase; forms cytoplasmic foci upon DNA replication stress | Core | NA | NA | NA |