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
7478-YPL129W YPL129W TAF14 TATA-binding protein-associated factor TAF14|TafII30|ANC1|TFG3|TAF30|SWP29 Subunit of TFIID, TFIIF, INO80, SWI/SNF, and NuA3 complexes; involved in RNA polymerase II transcription initiation and in chromatin modification; contains a YEATS domain Core NA NA NA
7479-YPL130W YPL130W SPO19 NA Meiosis-specific prospore protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation; identified as a weak high-copy suppressor of the spo1-1 ts mutation; SPO19 has a paralog, YOR214C, that arose from the whole genome duplication Core NA NA NA
7480-YPL131W YPL131W RPL5 uL18|ribosomal 60S subunit protein L5|L18|YL3|L5|L1a|RPL1|LPI14 Ribosomal 60S subunit protein L5; nascent Rpl5p is bound by specific chaperone Syo1p during translation; homologous to mammalian ribosomal protein L5 and bacterial L18; binds 5S rRNA and is required for 60S subunit assembly Core NA NA NA
7481-YPL132W YPL132W COX11 PSO7|LPI13 Protein required for delivery of copper to Cox1p; mitochondrial inner membrane protein; association with mitochondrial ribosomes suggests that copper delivery may occur during translation of Cox1p Core NA NA NA
7482-YPL133C YPL133C RDS2 NA Transcription factor involved in regulating gluconeogenesis; also involved in the regulation of glyoxylate cycle genes; member of the zinc cluster family of proteins; confers resistance to ketoconazole Core NA NA NA
7483-YPL134C YPL134C ODC1 mitochondrial 2-oxodicarboxylate carrier Mitochondrial inner membrane transporter; 2-oxodicarboxylate transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for lysine and glutamate biosynthesis and lysine catabolism; suppresses, in multicopy, an fmc1 null mutation; ODC1 has a paralog, ODC2, that arose from the whole genome duplication Core NA NA NA
7484-YPL135W_NumOfGenes_2 YPL135W ISU1 iron-binding protein ISU1|NUA1 Conserved protein of the mitochondrial matrix; performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); ISU1 has a paralog, ISU2, that arose from the whole genome duplication; isu1 isu2 double mutant is inviable; human homolog ISCU implicated in mitochondrial myopathy, can complement isu1 isu2 double mutant Core NA NA NA
7485-YPL137C_NumOfGenes_2 YPL137C GIP3 protein phosphatase regulator GIP3 Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; may interact with ribosomes, based on co-purification experiments; GIP3 has a paralog, HER1, that arose from the whole genome duplication Core NA NA NA
7486-YPL138C YPL138C SPP1 SAF41|CPS40 Subunit of COMPASS (Set1C); a complex which methylates histone H3 on lysine 4 and is required in telomeric transcriptional silencing; promotes meiotic DSB formation by interacting with H3K4me3 and Rec107p, a protein required for Spo11p-catalyzed DSB formation located on chromosome axes; interacts with Orc2p; PHD finger domain protein similar to human CGBP, an unmethylated CpG binding protein; relocalizes to cytosol in response to hypoxia Core NA NA NA
7487-YPL139C YPL139C UME1 WTM3 Component of both the Rpd3S and Rpd3L histone deacetylase complexes; negative regulator of meiosis; required for repression of a subset of meiotic genes during vegetative growth, binding of histone deacetylase Rpd3p required for activity, contains a NEE box and a WD repeat motif; homologous with Wtm1p; UME1 has a paralog, WTM2, that arose from the whole genome duplication Core NA NA NA
7488-YPL140C YPL140C MKK2 putative mitogen-activated protein kinase kinase MKK2|SSP33|LPI6 MAPKK involved in the protein kinase C signaling pathway; involved in control of cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk1p; MKK2 has a paralog, MKK1, that arose from the whole genome duplication Core NA NA NA
7489-YPL141C YPL141C FRK1 protein kinase FRK1 Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; interacts with rRNA transcription and ribosome biogenesis factors and the long chain fatty acyl-CoA synthetase Faa3p; FRK1 has a paralog, KIN4, that arose from the whole genome duplication Core NA NA NA
7490-YPL143W_NumOfGenes_2 YPL143W RPL33A eL33|ribosomal 60S subunit protein L33A|L33e|rp47|l37A|YL37|L33A|RPL37A Ribosomal 60S subunit protein L33A; N-terminally acetylated; rpl33a null mutant exhibits slow growth while rpl33a rpl33b double null mutant is inviable; homologous to mammalian ribosomal protein L35A, no bacterial homolog; RPL33A has a paralog, RPL33B, that arose from the whole genome duplication Core NA NA NA
7491-YPL144W YPL144W POC4 DMP1|PBA4 Component of a heterodimeric Poc4p-Irc25p chaperone; involved in assembly of alpha subunits into the 20S proteasome; may regulate formation of proteasome isoforms with alternative subunits under different conditions; upregulates proteasome assembly in response to the unfolded protein response activated by mistargeting of proteins (UPRam) Core NA NA NA
7492-YPL145C YPL145C KES1 oxysterol-binding protein KES1|BSR3|OSH4|LPI3 One of seven members of the yeast oxysterol binding protein family; involved in negative regulation of Sec14p-dependent Golgi complex secretory functions, peripheral membrane protein that localizes to the Golgi complex; KES1 has a paralog, HES1, that arose from the whole genome duplication Core NA NA NA

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