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
5228-YKL156W_NumOfGenes_2 YKL156W RPS27A eS27|ribosomal 40S subunit protein S27A|S27e|rp61|YS20|S27A Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S27, no bacterial homolog; RPS27A has a paralog, RPS27B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress Core NA NA NA
5229-YKL157W YKL157W APE2 metallo-aminopeptidase|YKL158W|LAP1 Aminopeptidase yscII; may have a role in obtaining leucine from dipeptide substrates; APE2 has a paralog, AAP1, that arose from the whole genome duplication Core NA NA NA
5230-YKL159C YKL159C RCN1 NA Protein involved in calcineurin regulation during calcium signaling; has similarity to H. sapiens DSCR1 which is found in the Down Syndrome candidate region Core NA NA NA
5231-YKL160W YKL160W ELF1 NA Transcription elongation factor with a conserved zinc finger domain; implicated in the maintenance of proper chromatin structure in actively transcribed regions; deletion inhibits Brome mosaic virus (BMV) gene expression Core NA NA NA
5232-YKL161C YKL161C KDX1 putative protein kinase KDX1|MLP1 Protein kinase; implicated in Slt2p mitogen-activated (MAP) kinase signaling pathway; interacts with numerous components in the mating pheromone and CWI MAPK pathways; associates with Rlm1p; KDX1 has a paralog, SLT2, that arose from the whole genome duplication Core NA NA NA
5233-YKL162C YKL162C NA NA Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion Core NA NA NA
5234-YKL162C-A YKL162C-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
5235-YKL163W YKL163W PIR3 beta-1,3-glucan linked protein|CCW8 O-glycosylated covalently-bound cell wall protein; required for cell wall stability; expression is cell cycle regulated, peaking in M/G1 and also subject to regulation by the cell integrity pathway; coding sequence contains length polymorphisms in different strains; PIR3 has a paralog, HSP150, that arose from the whole genome duplication Accessory Unknown S. mikatae NA
5236-YKL164C YKL164C PIR1 beta-1,3-glucan linked protein|CCW6 O-glycosylated protein required for cell wall stability; attached to the cell wall via beta-1,3-glucan; mediates mitochondrial translocation of Apn1p; expression regulated by the cell integrity pathway and by Swi5p during the cell cycle; PIR1 has a paralog, YJL160C, that arose from the whole genome duplication Core NA NA NA
5237-YKL165C YKL165C MCD4 mannose-ethanolamine phosphotransferase MCD4|FSR2|SSU21|ZRG16 Protein involved in GPI anchor synthesis; multimembrane-spanning protein that localizes to the endoplasmic reticulum; highly conserved among eukaryotes; GPI stands for glycosylphosphatidylinositol Core NA NA NA
5238-YKL165C-A YKL165C-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
5239-YKL166C YKL166C TPK3 cAMP-dependent protein kinase catalytic subunit TPK3 cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; partially redundant with Tpk1p and Tpk2p; localizes to P-bodies during stationary phase; TPK3 has a paralog, TPK1, that arose from the whole genome duplication Core NA NA NA
5240-YKL167C YKL167C MRP49 mitochondrial 54S ribosomal protein MRP49 Mitochondrial ribosomal protein of the large subunit; not essential for mitochondrial translation Core NA NA NA
5241-YKL168C YKL168C KKQ8 putative serine/threonine protein kinase KKQ8 Putative serine/threonine protein kinase with unknown cellular role; KKQ8 has a paralog, HAL5, that arose from the whole genome duplication Core NA NA NA
5242-YKL170W_NumOfGenes_2 YKL170W MRPL38 mitochondrial 54S ribosomal protein YmL38/YmL34|YmL38|YmL34|MRPL34 Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL34 and YmL38) on two-dimensional SDS gels; protein abundance increases in response to DNA replication stress Core NA NA NA

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