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 |
|---|---|---|---|---|---|---|---|---|
| 4178-YGR279C | YGR279C | SCW4 | putative family 17 glucosidase | Cell wall protein with similarity to glucanases; scw4 scw10 double mutants exhibit defects in mating; SCW4 has a paralog, SCW10, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4179-YGR280C | YGR280C | PXR1 | telomerase inhibitor|PinX1|GNO1 | Essential protein involved in rRNA and snoRNA maturation; competes with TLC1 RNA for binding to Est2p, suggesting a role in negative regulation of telomerase; human homolog inhibits telomerase; contains a G-patch RNA interacting domain | Core | NA | NA | NA |
| 4180-YGR281W | YGR281W | YOR1 | ATP-binding cassette transporter YOR1|YRS1 | Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter mediates export of many different organic anions including oligomycin; homolog of human cystic fibrosis transmembrane receptor (CFTR) | Core | NA | NA | NA |
| 4181-YGR282C_NumOfGenes_2 | YGR282C | BGL2 | glucan 1,3-beta-glucosidase|SCW9 | Endo-beta-1,3-glucanase; major protein of the cell wall, involved in cell wall maintenance; involved in incorporation of newly synthesized mannoprotein molecules into the cell wall | Core | NA | NA | NA |
| 4182-YGR283C_NumOfGenes_2 | YGR283C | NA | putative methyltransferase | Putative methyltransferase; may interact with ribosomes, based on co-purification experiments; predicted to be involved in ribosome biogenesis; null mutant is resistant to fluconazole; GFP-fusion protein localizes to the nucleolus; YGR283C has a paralog, YMR310C, that arose from the whole genome duplication | Core | NA | NA | NA |
| 4183-YGR284C_NumOfGenes_2 | YGR284C | ERV29 | NA | Protein localized to COPII-coated vesicles; involved in vesicle formation and incorporation of specific secretory cargo; protein abundance increases in response to DNA replication stress | Core | NA | NA | NA |
| 4184-YGR285C_NumOfGenes_2 | YGR285C | ZUO1 | zuotin | Ribosome-associated chaperone; zuotin functions in ribosome biogenesis and as a chaperone for nascent polypeptide chains in partnership with Ssz1p and SSb1/2; contains a DnaJ domain and functions as a J-protein partner for Ssb1p and Ssb2p; human gene DNAJC2 can partially complement yeast zuo1 null mutant | Core | NA | NA | NA |
| 4185-YGR286C_NumOfGenes_2 | YGR286C | BIO2 | biotin synthase | Biotin synthase; catalyzes the conversion of dethiobiotin to biotin, which is the last step of the biotin biosynthesis pathway; complements E. coli bioB mutant | Accessory | Ancestral | NA | NA |
| 4186-YGR287C_NumOfGenes_2 | YGR287C | IMA1 | oligo-1,6-glucosidase IMA1 | Major isomaltase (alpha-1,6-glucosidase/alpha-methylglucosidase); required for isomaltose utilization; preferred specificity for isomaltose, alpha-methylglucoside, and palatinose, but also exhibits alpha-1,2 glucosidase activity on sucrose and kojibiose, and can cleave the 1,3-alpha linkage of nigerose and turanose and the alpha-1,5 linkage of leucrose in vitro; member of the IMA isomaltase family | Accessory | Ancestral | NA | NA |
| 4187-YGR288W | YGR288W | MAL13 | transcription factor MAL13|MALR | MAL-activator protein; part of complex locus MAL1; nonfunctional in genomic reference strain S288C | Accessory | Ancestral | NA | NA |
| 4188-YGR289C | YGR289C | MAL11 | alpha-glucoside permease|MALT|AGT1 | High-affinity maltose transporter (alpha-glucoside transporter); inducible; encoded in the MAL1 complex locus; broad substrate specificity that includes maltotriose; required for isomaltose utilization | Accessory | Ancestral | NA | NA |
| 4189-YGR290W | YGR290W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; putative HLH protein; partially overlaps the verified ORF MAL11/YGR289C (a high-affinity maltose transporter) | Accessory | Unknown | NA | NA |
| 4190-YGR291C_NumOfGenes_2 | YGR291C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Accessory | Unknown | NA | NA |
| 4191-YGR292W_NumOfGenes_2 | YGR292W | MAL12 | alpha-glucosidase MAL12|MALS | Maltase (alpha-D-glucosidase); inducible protein involved in maltose catabolism; encoded in the MAL1 complex locus; hydrolyzes the disaccharides maltose, turanose, maltotriose, and sucrose | Accessory | Ancestral | NA | NA |
| 4192-YGR293C_NumOfGenes_2 | YGR293C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YGR294W | Core | NA | NA | NA |