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 |
|---|---|---|---|---|---|---|---|---|
| 7103-YOR141C | YOR141C | ARP8 | NA | Nuclear actin-related protein involved in chromatin remodeling; component of chromatin-remodeling enzyme complexes; has mRNA binding activity | Core | NA | NA | NA |
| 7104-YOR142W | YOR142W | LSC1 | succinate--CoA ligase (GDP-forming) subunit alpha | Alpha subunit of succinyl-CoA ligase; succinyl-CoA ligase is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate; phosphorylated | Core | NA | NA | NA |
| 7105-YOR143C | YOR143C | THI80 | thiamine diphosphokinase | Thiamine pyrophosphokinase; phosphorylates thiamine to produce the coenzyme thiamine pyrophosphate (thiamine diphosphate) | Core | NA | NA | NA |
| 7106-YOR144C | YOR144C | ELG1 | RTT110 | Subunit of an alternative replication factor C complex; important for DNA replication and genome integrity; suppresses spontaneous DNA damage; involved in homologous recombination-mediated repair and telomere homeostasis; required for PCNA (Pol30p) unloading during DNA replication | Core | NA | NA | NA |
| 7107-YOR145C_NumOfGenes_2 | YOR145C | PNO1 | RRP20|DIM2 | Essential nucleolar protein required for pre-18S rRNA processing; interacts with Dim1p, an 18S rRNA dimethyltransferase, and also with Nob1p, which is involved in proteasome biogenesis; contains a KH domain | Core | NA | NA | NA |
| 7108-YOR147W | YOR147W | MDM32 | NA | Mitochondrial inner membrane protein with similarity to Mdm31p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MDM10, MDM12, and MDM34; variation between SK1 and S288C at residues 182 and 262 impacts invasive growth and mitochondrial network structure | Core | NA | NA | NA |
| 7109-YOR148C | YOR148C | SPP2 | NA | Essential protein that promotes the first step of splicing; required for the final stages of spliceosome maturation and activation; interacts with Prp2p, which may release Spp2p from the spliceosome following the first cleavage reaction; stimulates Prp2p ATPase activity | Core | NA | NA | NA |
| 7110-YOR149C | YOR149C | SMP3 | glycosylphosphatidylinositol-alpha 1,2 mannosyltransferase|SAP2|LAS2 | Alpha 1,2-mannosyltransferase; involved in glycosyl phosphatidyl inositol (GPI) biosynthesis; required for addition of the fourth, side branching mannose to the GPI core structure | Core | NA | NA | NA |
| 7111-YOR150W | YOR150W | MRPL23 | mitochondrial 54S ribosomal protein YmL23|YmL23 | Mitochondrial ribosomal protein of the large subunit; localizes to vacuole in response to H2O2 | Core | NA | NA | NA |
| 7112-YOR151C | YOR151C | RPB2 | DNA-directed RNA polymerase II core subunit RPB2|B150|SOH2|SIT2|RPO22|RPB150 | RNA polymerase II second largest subunit B150; part of central core; similar to bacterial beta subunit | Core | NA | NA | NA |
| 7113-YOR152C | YOR152C | ATG40 | NA | Autophagy receptor with a role in endoplasmic reticulum degradation; involved specifically in autophagy of cortical and cytoplasmic ER in response to nitrogen starvation or rapamycin treatment; localizes to the cortical and cytoplasmic ER; similar to human FAM134B, which is also involved in ER autophagy and is associated with sensory neuropathy | Core | NA | NA | NA |
| 7114-YOR153W | YOR153W | PDR5 | ATP-binding cassette multidrug transporter PDR5|STS1|YDR1|LEM1 | Plasma membrane ATP-binding cassette (ABC) transporter; multidrug transporter actively regulated by Pdr1p; also involved in steroid transport, cation resistance, and cellular detoxification during exponential growth; PDR5 has a paralog, PDR15, that arose from the whole genome duplication | Core | NA | NA | NA |
| 7115-YOR154W | YOR154W | SLP1 | NA | Glycosylated integral ER membrane protein of unknown function; forms an ER-membrane associated protein complex with Emp65p; member of the SUN-like family of proteins; genetic interactions suggest a role in folding of ER membrane proteins; required for nuclear envelope localization of Mps3p | Core | NA | NA | NA |
| 7116-YOR155C | YOR155C | ISN1 | IMP 5'-nucleotidase | Inosine 5'-monophosphate (IMP)-specific 5'-nucleotidase; catalyzes the breakdown of IMP to inosine; responsible for production of nicotinamide riboside and nicotinic acid riboside; expression positively regulated by nicotinic acid and glucose availability; does not show similarity to known 5'-nucleotidases from other organisms | Core | NA | NA | NA |
| 7117-YOR156C | YOR156C | NFI1 | SUMO ligase NFI1|SIZ2 | SUMO E3 ligase; catalyzes sumoylation of Yku70p/80p and Sir4p promoting telomere anchoring to the nuclear envelope and regulating telomerase activity; DNA-bound form catalyzes a DNA-damaged triggered sumoylation wave resulting in multisite modification of several DNA repair proteins, enhancing interactions between these proteins and accelerating repair; sumoylates Cse4p, a prerequisite for STUbL-mediated Ub-dependent degradation; role in telomere length maintenance | Core | NA | NA | NA |