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 |
|---|---|---|---|---|---|---|---|---|
| 2843-YDR153C | YDR153C | ENT5 | NA | Protein containing an N-terminal epsin-like domain; involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p, clathrin adaptor complex AP-1, and clathrin | Core | NA | NA | NA |
| 2844-YDR154C | YDR154C | NA | NA | Dubious open reading frame; unlikely to encode a functional protein, based on available experimental and comparative sequence data; null mutant exhibits synthetic phenotype with alpha-synuclein | Accessory | Ancestral | NA | NA |
| 2845-YDR155C | YDR155C | CPR1 | peptidylprolyl isomerase CPR1|CPH1|CYP1 | Cytoplasmic peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds the drug cyclosporin A; N-terminally propionylated in vivo; protein abundance increases in response to DNA replication stress | Accessory | Ancestral | NA | NA |
| 2846-YDR156W | YDR156W | RPA14 | DNA-directed RNA polymerase I subunit RPA14|A14 | RNA polymerase I subunit A14 | Core | NA | NA | NA |
| 2847-YDR157W | YDR157W | NA | NA | Putative protein of unknown function; conserved across S. cerevisiae strains | Core | NA | NA | NA |
| 2848-YDR158W | YDR158W | HOM2 | aspartate-semialdehyde dehydrogenase|THR2 | Aspartic beta semi-aldehyde dehydrogenase; catalyzes the second step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis | Core | NA | NA | NA |
| 2849-YDR159W | YDR159W | SAC3 | LEP1 | mRNA export factor; required for biogenesis of the small ribosomal subunit; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; similar to the human germinal center-associated nuclear protein (GANP) | Core | NA | NA | NA |
| 2850-YDR160W | YDR160W | SSY1 | RAA1|SHR10 | Component of the SPS plasma membrane amino acid sensor system; senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes; other members are Ssy1p, Ptr3p, and Ssy5p | Core | NA | NA | NA |
| 2851-YDR161W | YDR161W | ACL4 | NA | Specific assembly chaperone for ribosomal protein Rpl4p; binds to an evolutionarily conserved surface extension of nascent Rpl4p and chaperones Rpl4p until its assembly into the pre-ribosome; transcriptionally co-regulated with rRNA and ribosome biosynthesis genes | Core | NA | NA | NA |
| 2852-YDR162C | YDR162C | NBP2 | NA | Protein involved in the HOG (high osmolarity glycerol) pathway; negatively regulates Hog1p by recruitment of phosphatase Ptc1p the Pbs2p-Hog1p complex; interacts with Bck1p and down regulates the cell wall integrity pathway; found in the nucleus and cytoplasm, contains an SH3 domain and a Ptc1p binding domain (PBM) | Core | NA | NA | NA |
| 2853-YDR163W | YDR163W | CWC15 | U2-type spliceosomal complex subunit CWC15 | Non-essential protein involved in pre-mRNA splicing; component of a complex containing Cef1p; has similarity to S. pombe Cwf15p | Core | NA | NA | NA |
| 2854-YDR164C | YDR164C | SEC1 | NA | Sm-like protein involved in docking and fusion of exocytic vesicles; binds to assembled SNARE complexes at the membrane and stimulates membrane fusion; localization to sites of secretion (bud neck and bud tip) is dependent on SNARE function; interacts directly with essential exocyst subunit Sec6p | Core | NA | NA | NA |
| 2855-YDR165W | YDR165W | TRM82 | NA | Catalytic subunit of a tRNA methyltransferase complex; Trm8p and Trm82p comprise an enzyme that catalyzes a methyl-transfer from S-adenosyl-l-methionine to the N(7) atom of guanine at position 46 in tRNA; Trm8 lacks catalytic activity if not bound to Trm82p; relocalizes to the cytosol in response to hypoxia; mutation in human ortholog WDR4 causes microcephalic primordial dwarfism | Core | NA | NA | NA |
| 2856-YDR166C | YDR166C | SEC5 | exocyst subunit SEC5 | Essential 107kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; involved in assembly of the exocyst complex; required with Sec3p for ER inheritance where it promotes anchoring of the cortical ER at the bud tip | Core | NA | NA | NA |
| 2857-YDR167W | YDR167W | TAF10 | TafII25|TAF25|TAF23 | Subunit (145 kDa) of TFIID and SAGA complexes; involved in RNA polymerase II transcription initiation and in chromatin modification | Core | NA | NA | NA |