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 |
|---|---|---|---|---|---|---|---|---|
| 2033-YBR053C | YBR053C | NA | NA | Putative protein of unknown function; induced by cell wall perturbation | Core | NA | NA | NA |
| 2034-YBR054W | YBR054W | YRO2 | NA | Protein with a putative role in response to acid stress; null mutant is sensitive to acetic acid; transcription is regulated by Haa1p and induced in the presence of acetic acid; protein observed in plasma membrane foci in the presence of acetic acid; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |
| 2035-YBR055C | YBR055C | PRP6 | U4/U6-U5 snRNP complex subunit PRP6|TSM7269|RNA6 | Splicing factor; component of the U4/U6-U5 snRNP complex | Core | NA | NA | NA |
| 2036-YBR056W | YBR056W | NA | 17-beta-hydroxysteroid dehydrogenase-like protein | Putative glycoside hydrolase of the mitochondrial intermembrane space | Core | NA | NA | NA |
| 2037-YBR056W-A_NumOfGenes_2 | YBR056W-A | NA | NA | Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps dubious ORF YBR056C-B; YBR056W-A has a paralog, YDR034W-B, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2038-YBR057C | YBR057C | MUM2 | SPOT8 | Protein essential for meiotic DNA replication and sporulation; cytoplasmic protein; subunit of the MIS complex which controls mRNA methylation during during the induction of sporulation; also interacts with Orc2p, which is a component of the origin recognition complex | Core | NA | NA | NA |
| 2039-YBR058C | YBR058C | UBP14 | ubiquitin-specific protease UBP14|GID6 | Ubiquitin-specific protease; specifically disassembles unanchored ubiquitin chains; involved in fructose-1,6-bisphosphatase (Fbp1p) degradation; similar to human isopeptidase T | Core | NA | NA | NA |
| 2040-YBR058C-A | YBR058C-A | TSC3 | NA | Protein that stimulates the activity of serine palmitoyltransferase; involved in sphingolipid biosynthesis; Lcb1p and Lcb2p are the two components of serine palmitoyltransferase | Core | NA | NA | NA |
| 2041-YBR059C | YBR059C | AKL1 | serine/threonine protein kinase AKL1 | Ser-Thr protein kinase; member (with Ark1p and Prk1p) of the Ark kinase family; involved in endocytosis and actin cytoskeleton organization | Core | NA | NA | NA |
| 2042-YBR060C | YBR060C | ORC2 | origin recognition complex subunit 2|SIR5|RRR1 | Subunit of the origin recognition complex (ORC); ORC directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; interacts with Spp1p and with trimethylated histone H3; phosphorylated by Cdc28p | Accessory | Ancestral | NA | NA |
| 2043-YBR061C | YBR061C | TRM7 | tRNA methyltransferase TRM7 | 2'-O-ribose methyltransferase; methylates the 2'-O-ribose of tRNA-Phe, tRNA-Trp, and tRNA-Leu at positions C32 and N34 of tRNA anticodon loop; crucial biological role likely modification of tRNA-Phe; interacts with Trm732p and Rtt10p in 2'-O-methylation of C32 and N34 substrate tRNAs, respectively; yeast null mutant can be functionally complemented by human FTSJ1, mutations in which have been implicated in nonsyndromic X-linked intellectual disability (NSXLID) | Accessory | Ancestral | NA | NA |
| 2044-YBR062C | YBR062C | NA | NA | Protein of unknown function that interacts with Msb2p; may play a role in activation of the filamentous growth pathway | Accessory | Ancestral | NA | NA |
| 2045-YBR063C_NumOfGenes_2 | YBR063C | NA | NA | Putative protein of unknown function; YBR063C is not an essential gene | Accessory | Ancestral | NA | NA |
| 2046-YBR065C | YBR065C | ECM2 | SLT11 | Pre-mRNA splicing factor; facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome, function may be regulated by Slu7p | Accessory | Ancestral | NA | NA |
| 2047-YBR066C | YBR066C | NRG2 | NA | Transcriptional repressor; mediates glucose repression and negatively regulates filamentous growth; activated in stochastic pulses of nuclear localization in response to low glucose | Accessory | Ancestral | NA | NA |