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 |
|---|---|---|---|---|---|---|---|---|
| 3908-YGR007W | YGR007W | ECT1 | ethanolamine-phosphate cytidylyltransferase|MUQ1 | Ethanolamine-phosphate cytidylyltransferase; catalyzes the second step of phosphatidylethanolamine biosynthesis; involved in the maintenance of plasma membrane; similar to mammalian CTP: phosphocholine cytidylyl-transferases; inability of the null mutant to synthesize phosphatidylethanolamine and phosphatidylcholine from ethanolamine is functionally complemented by human PCYT2 | Core | NA | NA | NA |
| 3909-YGR008C | YGR008C | STF2 | ATPase-stabilizing factor family protein | Protein involved in resistance to desiccation stress; Stf2p exhibits antioxidant properties, and its overexpression prevents ROS accumulation and apoptosis; binds to F0 sector of mitochondrial F1F0 ATPase in vitro and may modulate the inhibitory action of Inh1p and Stf1p; protein abundance increases in response to DNA replication stress; STF2 has a paralog, TMA10, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3910-YGR009C | YGR009C | SEC9 | HSS7 | t-SNARE protein required for secretory vesicle-plasma membrane fusion; similar to but not functionally redundant with Spo20p; interacts non-exocyst bound Sec6p; SNAP-25 homolog | Core | NA | NA | NA |
| 3911-YGR010W | YGR010W | NMA2 | nicotinamide-nucleotide adenylyltransferase NMA2 | Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in de novo and salvage synthesis of NAD(+); homolog of human NMNAT; NMA2 has a paralog, NMA1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 3912-YGR011W | YGR011W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Ancestral | NA | NA |
| 3913-YGR012W | YGR012W | MCY1 | putative cysteine synthase | Putative cysteine synthase; localized to the mitochondrial outer membrane | Core | NA | NA | NA |
| 3914-YGR013W | YGR013W | SNU71 | NA | Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart | Core | NA | NA | NA |
| 3915-YGR014W | YGR014W | MSB2 | NA | Mucin family member involved in various signaling pathways; functions as osmosensor in the Sho1p-mediated HOG pathway; functions in Cdc42p- and MAP kinase-dependent filamentous growth signaling pathway; processed into secreted and cell-associated forms by aspartyl protease Yps1p; potential Cdc28p substrate | Core | NA | NA | NA |
| 3916-YGR015C | YGR015C | NA | putative hydrolase | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion | Core | NA | NA | NA |
| 3917-YGR016W | YGR016W | NA | NA | Putative protein of unknown function | Core | NA | NA | NA |
| 3918-YGR018C_NumOfGenes_2 | YGR018C | NA | NA | Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps the uncharacterized ORF YGR017W | Core | NA | NA | NA |
| 3919-YGR019W_NumOfGenes_2 | YGR019W | UGA1 | 4-aminobutyrate transaminase | Gamma-aminobutyrate (GABA) transaminase; also known as 4-aminobutyrate aminotransferase; involved in the 4-aminobutyrate and glutamate degradation pathways; required for normal oxidative stress tolerance and nitrogen utilization; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 3920-YGR020C | YGR020C | VMA7 | H(+)-transporting V1 sector ATPase subunit F | Subunit F of the V1 peripheral membrane domain of V-ATPase; part of the electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane; the V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase) has eight subunits | Core | NA | NA | NA |
| 3921-YGR021W | YGR021W | NA | HAH1 | Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Core | NA | NA | NA |
| 3922-YGR023W_NumOfGenes_2 | YGR023W | MTL1 | NA | Putative plasma membrane sensor; involved in cell integrity signaling and stress response during glucose starvation and oxidative stress; has structural and functional similarity to Mid2p; MTL1 has a paralog, MID2, that arose from the whole genome duplication | Core | NA | NA | NA |