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 |
|---|---|---|---|---|---|---|---|---|
| 6428-YNL035C | YNL035C | NA | NA | Nuclear protein of unknown function; relocalizes to the cytosol in response to hypoxia; contains WD-40 domains; not an essential gene; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6429-YNL036W | YNL036W | NCE103 | carbonate dehydratase NCE103|NCE3 | Carbonic anhydrase; metalloenzyme that catalyzes CO2 hydration to bicarbonate, which is an important metabolic substrate, and protons; not expressed under conditions of high CO2, such as inside a growing colony, but transcription is induced in response to low CO2 levels, such as on the colony surface in ambient air; poorly transcribed under aerobic conditions and at an undetectable level under anaerobic conditions; abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 6430-YNL037C | YNL037C | IDH1 | isocitrate dehydrogenase (NAD(+)) IDH1 | Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase; complex catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle | Core | NA | NA | NA |
| 6431-YNL038W | YNL038W | GPI15 | phosphatidylinositol N-acetylglucosaminyltransferase GPI15 | Protein involved in the synthesis of GlcNAc-PI; GlcNAc-PI is the first intermediate in the synthesis of glycosylphosphatidylinositol (GPI) anchors; homologous to the human PIG-H protein; GlcNAc-PI stands for N-acetylglucosaminyl phosphatidylinositol | Core | NA | NA | NA |
| 6432-YNL039W | YNL039W | BDP1 | transcription factor TFIIIB subunit BDP1|TFC7|TFIIIB90|B"|TFC5 | Essential subunit of RNA polymerase III transcription factor (TFIIIB); TFIIIB is involved in transcription of genes encoding tRNAs, 5S rRNA, U6 snRNA, and other small RNAs | Core | NA | NA | NA |
| 6433-YNL040W | YNL040W | NA | putative alanine--tRNA ligase | Protein of unknown function; has strong similarity to alanyl-tRNA synthases from Eubacteria; null mutant displays decreased translation rate and increased readthrough of premature stop codons; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL040W is not an essential gene | Core | NA | NA | NA |
| 6434-YNL041C | YNL041C | COG6 | Golgi transport complex subunit COG6|SEC37|COD2 | Component of the conserved oligomeric Golgi complex; a cytosolic tethering complex (Cog1p through Cog8p) that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments | Core | NA | NA | NA |
| 6435-YNL042W | YNL042W | BOP3 | NA | Protein of unknown function; potential Cdc28p substrate; overproduction confers resistance to methylmercury | Core | NA | NA | NA |
| 6436-YNL042W-B | YNL042W-B | NA | NA | Putative protein of unknown function | Core | NA | NA | NA |
| 6437-YNL044W_NumOfGenes_2 | YNL044W | YIP3 | NA | Protein localized to COPII vesicles; proposed to be involved in ER to Golgi transport; interacts with members of the Rab GTPase family and Yip1p; also interacts with Rtn1p | Core | NA | NA | NA |
| 6438-YNL045W | YNL045W | LAP2 | bifunctional aminopeptidase/epoxide hydrolase | Leucyl aminopeptidase yscIV with epoxide hydrolase activity; metalloenzyme containing one zinc atom; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; also known as leukotriene A4 hydrolase | Core | NA | NA | NA |
| 6439-YNL046W | YNL046W | NA | NA | Putative protein of unknown function; expression depends on Swi5p; GFP-fusion protein localizes to the endoplasmic reticulum; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO) | Core | NA | NA | NA |
| 6440-YNL047C | YNL047C | SLM2 | phosphatidylinositol 4,5-bisphosphate-binding protein|LIT1 | Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm1p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; TORC2 complex substrate and effector; SLM2 has a paralog, SLM1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 6441-YNL048W | YNL048W | ALG11 | alpha-1,2-mannosyltransferase ALG11 | Alpha-1,2-mannosyltransferase; catalyzes sequential addition of the two terminal alpha 1,2-mannose residues to the Man5GlcNAc2-PP-dolichol intermediate during asparagine-linked glycosylation in the ER | Core | NA | NA | NA |
| 6442-YNL049C | YNL049C | SFB2 | COPII subunit SFB2|ISS1 | Component of the Sec23p-Sfb2p heterodimer of the COPII vesicle coat; required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb3p; SFB2 has a paralog, SEC24, that arose from the whole genome duplication | Core | NA | NA | NA |