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 |
|---|---|---|---|---|---|---|---|---|
| 7268-YOR309C | YOR309C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP58 | Accessory | Ancestral | NA | NA |
| 7269-YOR310C | YOR310C | NOP58 | RNA-processing protein NOP58|NOP5 | Protein involved in producing mature rRNAs and snoRNAs; involved in pre-rRNA processing, 18S rRNA synthesis, and snoRNA synthesis; component of the small subunit processome complex, which is required for processing of pre-18S rRNA | Core | NA | NA | NA |
| 7270-YOR311C | YOR311C | DGK1 | diacylglycerol kinase|HSD1 | Diacylglycerol kinase; localized to the endoplasmic reticulum (ER); overproduction induces enlargement of ER-like membrane structures and suppresses a temperature-sensitive sly1 mutation; contains a CTP transferase domain | Core | NA | NA | NA |
| 7271-YOR312C | YOR312C | RPL20B | eL20|ribosomal 60S subunit protein L20B|L20e|L20B|L18B|RPL18A1 | Ribosomal 60S subunit protein L20B; homologous to mammalian ribosomal protein L18A, no bacterial homolog; RPL20B has a paralog, RPL20A, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7272-YOR313C | YOR313C | SPS4 | NA | Protein whose expression is induced during sporulation; not required for sporulation; heterologous expression in E. coli induces the SOS response that senses DNA damage | Core | NA | NA | NA |
| 7273-YOR314W | YOR314W | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 7274-YOR314W-A | YOR314W-A | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data | Core | NA | NA | NA |
| 7275-YOR315W | YOR315W | SFG1 | NA | Nuclear protein putative transcription factor; required for growth of superficial pseudohyphae (which do not invade the agar substrate) but not for invasive pseudohyphal growth; may act together with Phd1p; potential Cdc28p substrate | Core | NA | NA | NA |
| 7276-YOR316C | YOR316C | COT1 | metal cation transporter COT1 | Vacuolar transporter that mediates zinc transport into the vacuole; overexpression confers resistance to cobalt and rhodium; protein abundance increases in response to DNA replication stress; COT1 has a paralog, ZRC1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7277-YOR316C-A | YOR316C-A | NA | NA | Putative protein of unknown function; identified by fungal homology and RT-PCR | Core | NA | NA | NA |
| 7278-YOR317W | YOR317W | FAA1 | long-chain fatty acid-CoA ligase FAA1 | Long chain fatty acyl-CoA synthetase; activates fatty acids with a preference for C12:0-C16:0 chain lengths; role in the competitive import of long-chain fatty acids and sphingoid long-chain bases; accounts for most acyl-CoA synthetase activity; localizes to lipid particles and the plasma membrane; role in sphingolipid-to-glycerolipid metabolism; forms ER foci upon replication stress; faa1 faa4 double null complemented by any of human ACSBG1, ACSL1, 3, 4, 5, 6, SLC27A2, or 4 | Core | NA | NA | NA |
| 7279-YOR318C | YOR318C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo | Core | NA | NA | NA |
| 7280-YOR319W | YOR319W | HSH49 | U2 snRNP complex subunit HSH49 | U2-snRNP associated splicing factor; similar to the mammalian splicing factor SAP49; proposed to function as a U2-snRNP assembly factor along with Hsh155p and binding partner Cus1p; contains two RNA recognition motifs (RRM) | Core | NA | NA | NA |
| 7281-YOR320C | YOR320C | GNT1 | glucose N-acetyltransferase | N-acetylglucosaminyltransferase; capable of modification of N-linked glycans in the Golgi apparatus | Core | NA | NA | NA |
| 7282-YOR321W | YOR321W | PMT3 | dolichyl-phosphate-mannose-protein mannosyltransferase PMT3 | Protein O-mannosyltransferase; transfers mannose residues from dolichyl phosphate-D-mannose to protein serine/threonine residues; acts in a complex with Pmt5p, can instead interact with Pmt1p in some conditions; antifungal drug target; PMT3 has a paralog, PMT2, that arose from the whole genome duplication | Core | NA | NA | NA |