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 |
|---|---|---|---|---|---|---|---|---|
| 2018-YBR038W_NumOfGenes_2 | YBR038W | CHS2 | chitin synthase CHS2 | Chitin synthase II; catalyzes transfer of N-acetylglucosamine (GlcNAc) to chitin upon activation of zymogenic form; required for chitin synthesis in the primary septum during cytokinesis; localization regulated by Cdk1p during mitosis; phosphorylation by Dbf2p kinase regulates its dynamics and chitin synthesis during cytokinesis | Core | NA | NA | NA |
| 2019-YBR039W_NumOfGenes_2 | YBR039W | ATP3 | F1F0 ATP synthase subunit gamma | Gamma subunit of the F1 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis | Accessory | Ancestral | NA | NA |
| 2020-YBR040W | YBR040W | FIG1 | NA | Integral membrane protein required for efficient mating; may participate in or regulate the low affinity Ca2+ influx system, which affects intracellular signaling and cell-cell fusion during mating | Accessory | Ancestral | NA | NA |
| 2021-YBR041W | YBR041W | FAT1 | long-chain fatty acid transporter FAT1 | Very long chain fatty acyl-CoA synthetase and fatty acid transporter; activates imported fatty acids with a preference for very long lengths (C20-C26); has a separate function in the transport of long chain fatty acids | Accessory | Ancestral | NA | NA |
| 2022-YBR042C | YBR042C | CST26 | putative acyltransferase|PSI1 | Acyltransferase; enzyme mainly responsible for the introduction of saturated very long chain fatty acids into neo-synthesized molecules of phosphatidylinositol; required for incorporation of stearic acid into phosphatidylinositol; affects chromosome stability when overexpressed; CST26 has a paralog, YDR018C, that arose from the whole genome duplication | Accessory | Ancestral | NA | NA |
| 2023-YBR043C | YBR043C | QDR3 | AQR2 | Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; has a role in polyamine homeostasis; involved in spore wall asembly; sequence similarity to DTR1 and QDR1, and the triple mutant dtr1 qdr1 qdr3 exhibits reduced dityrosine fluorescence relative to the single mutants; expression is upregulated under polyamine stress; required for resistance to quinidine, barban, cisplatin, and bleomycin | Accessory | Ancestral | NA | NA |
| 2024-YBR044C | YBR044C | TCM62 | NA | Protein involved in assembly of the succinate dehydrogenase complex; mitochondrial; putative chaperone | Core | NA | NA | NA |
| 2025-YBR045C_NumOfGenes_2 | YBR045C | GIP1 | protein phosphatase regulator GIP1 | Meiosis-specific regulatory subunit of the Glc7p protein phosphatase; regulates spore wall formation and septin organization, required for expression of some late meiotic genes and for normal localization of Glc7p | Core | NA | NA | NA |
| 2026-YBR046C | YBR046C | ZTA1 | NADPH:quinone reductase | NADPH-dependent quinone reductase; GFP-tagged protein localizes to the cytoplasm and nucleus; has similarity to E. coli quinone oxidoreductase and to human zeta-crystallin | Accessory | Ancestral | NA | NA |
| 2027-YBR047W | YBR047W | FMP23 | NA | Putative protein of unknown function; proposed to be involved in iron or copper homeostasis; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies | Accessory | Ancestral | NA | NA |
| 2028-YBR048W_NumOfGenes_2 | YBR048W | RPS11B | uS17|ribosomal 40S subunit protein S11B|S17|rp41B|YS12|S18B|S11B | Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; RPS11B has a paralog, RPS11A, that arose from the whole genome duplication | Accessory | Ancestral | NA | NA |
| 2029-YBR049C | YBR049C | REB1 | DNA-binding protein REB1|GRF2 | RNA polymerase I enhancer binding protein; DNA binding protein that binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription; Reb1p bound to DNA acts to block RNA polymerase II readthrough transcription | Core | NA | NA | NA |
| 2030-YBR050C | YBR050C | REG2 | protein phosphatase regulator REG2 | Regulatory subunit of the Glc7p type-1 protein phosphatase; involved with Reg1p, Glc7p, and Snf1p in regulation of glucose-repressible genes, also involved in glucose-induced proteolysis of maltose permease; REG2 has a paralog, REG1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2031-YBR051W | YBR051W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the REG2/YBR050C regulatory subunit of the Glc7p type-1 protein phosphatase | Accessory | Ancestral | NA | NA |
| 2032-YBR052C | YBR052C | RFS1 | flavodoxin-like fold family protein | Protein of unknown function; member of a flavodoxin-like fold protein family that includes Pst2p and Ycp4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; RFS1 has a paralog, PST2, that arose from the whole genome duplication | Core | NA | NA | NA |