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 |
|---|---|---|---|---|---|---|---|---|
| 2813-YDR122W | YDR122W | KIN1 | serine/threonine protein kinase KIN1 | Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; KIN1 has a paralog, KIN2, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2814-YDR123C | YDR123C | INO2 | SCS1|DIE1 | Transcription factor; component of the heteromeric Ino2p/Ino4p basic helix-loop-helix transcription activator that binds inositol/choline-responsive elements (ICREs), required for derepression of phospholipid biosynthetic genes in response to inositol depletion; involved in diauxic shift | Core | NA | NA | NA |
| 2815-YDR124W | YDR124W | NA | NA | Putative protein of unknown function; non-essential gene; expression is strongly induced by alpha factor | Core | NA | NA | NA |
| 2816-YDR125C | YDR125C | ECM18 | alpha/beta hydrolase family protein | Protein of unknown function; ECM18 has a paralog, ICT1, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2817-YDR126W | YDR126W | SWF1 | palmitoyltransferase SWF1|PSL10 | Palmitoyltransferase that acts on transmembrane proteins; including the SNAREs Snc1p, Syn8p, Tlg1p and likely all SNAREs; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; may have a role in vacuole fusion | Core | NA | NA | NA |
| 2818-YDR127W | YDR127W | ARO1 | pentafunctional protein ARO1p | Pentafunctional arom protein; catalyzes steps 2 through 6 in the biosynthesis of chorismate, which is a precursor to aromatic amino acids | Core | NA | NA | NA |
| 2819-YDR128W | YDR128W | MTC5 | SEA3 | Subunit of SEACAT, a subcomplex of the SEA complex; Mtc1p, along with Rtc1p and Sea4p, redundantly inhibit the TORC1 inhibitory role of the Iml1p/SEACIT (Iml1p-Npr2p-Npr3p) subcomplex, a GAP for GTPase Gtr1p (EGOC subunit) in response to amino acid limitation, thereby resulting in activation of TORC1 signaling; SEA is a coatomer-related complex that associates dynamically with the vacuole; relative distribution to the vacuolar membrane decreases upon DNA replication stress | Core | NA | NA | NA |
| 2820-YDR129C | YDR129C | SAC6 | fimbrin|ABP67 | Fimbrin, actin-bundling protein; cooperates with Scp1p in organization and maintenance of the actin cytoskeleton; phosphorylated by Cdc28p/Clb2p in metaphase on T103, to regulate conformation, and modulate actin filament binding affinity and actin cable dynamics; relocalizes from the plasma membrane to the cytoplasm upon DNA replication stress; human homologs PLS3 and LCP1 implicated in spinocerebellar ataxia type 2 (SCA2) can each complement yeast null mutant | Core | NA | NA | NA |
| 2821-YDR130C | YDR130C | FIN1 | NA | Spindle pole body-related intermediate filament protein; forms cell cycle-specific filaments between spindle pole bodies in dividing cells; localizes to poles and microtubules of spindle during anaphase and contributes to spindle stability; involved in Glc7p localization and regulation; relative distribution to the nucleus increases upon DNA replication stress | Core | NA | NA | NA |
| 2822-YDR131C | YDR131C | NA | NA | F-box protein subunit of SCF ubiquitin ligase complex; substrate-specific adaptor subunit that recruits substrates to a core ubiquitination complex | Core | NA | NA | NA |
| 2823-YDR132C | YDR132C | NA | NA | Protein of unknown function; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; YDR132C has a paralog, YLR108C, that arose from the whole genome duplication | Core | NA | NA | NA |
| 2824-YDR133C | YDR133C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps YDR134C | Accessory | Ancestral | NA | NA |
| 2825-YDR134C | YDR134C | NA | NA | Cell wall protein; YDR134C has a paralog, CCW12, that arose from the whole genome duplication; S. cerevisiae genome reference strain S288C contains an internal in-frame stop at codon 67, which in other strains encodes glutamine | Accessory | Ancestral | NA | NA |
| 2826-YDR135C | YDR135C | YCF1 | ATP-binding cassette glutathione S-conjugate transporter YCF1 | Vacuolar glutathione S-conjugate transporter; ABC-C transporter of the ATP-binding cassette family; required for vacuole fusion; forms stable complexes with vacuole fusion machinery; regulates Vam7p recruitment to vacuoles; role in detoxifying metals (Cd, Hg, As); transports GSSG that is not immediately reduced in cytosol to vacuole; transports unconjugated bilirubin, selenodigluthatione, oxidized glutathione; similar to human cystic fibrosis protein CFTR | Core | NA | NA | NA |
| 2827-YDR136C | YDR136C | VPS61 | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; not conserved in closely related Saccharomyces species; 4% of ORF overlaps the verified gene RGP1; deletion causes a vacuolar protein sorting defect | Core | NA | NA | NA |