Gene name: RRP40
Reference locus (S288C): YOL142W
Gene biotype: protein_coding
Description: Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain both S1 and KH RNA binding domains; mutations in the human homolog, EXOSC3, cause pontocerebellar hypoplasia with motor neuron degeneration
Top 10 interactors (score): CSL4 (0.999); LRP1 (0.999); RRP6 (0.999); RRP43 (0.999); RRP46 (0.999); MTR3 (0.999); SKI7 (0.999); MPP6 (0.999); DIS3 (0.999); RRP45 (0.999); MTR4 (0.999); SKI6 (0.999); RRP4 (0.999); RRP42 (0.999); EMG1 (0.98); IMP3 (0.979); SKI2 (0.976); DSS1 (0.972); SKI3 (0.95); PNO1 (0.948)
Homologues (species, bitscore): EXOSC3 (Homo sapiens, 121.7); Exosc3 (Mus musculus, 125.6); exosc3 (Danio rerio, 110.2); exosc3 (Xenopus tropicalis, 120.6); Rrp40 (Drosophila melanogaster, 126.7); exos-3 (Caenorhabditis elegans, 93.2); AT2G25355 (Arabidopsis thaliana, 100.5)
External links:
Saccharomyces genome database (SGD)
STRING database
BioGRID
UniProt Knowledgebase
Kyoto encyclopedia of genes and genomes (KEGG)
Reactome
UCSC Genome Browser
| strain | assembly | application | macro_region | gene_coord | geneID | rnaID | protID | %id | %cov_exon | status | copyNumber | copyID | nORFs | match_ref_CDS | validORF | missing_startCodon | missing_stopCodon | outOfFrame_stopCodon |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| AKU4011 | GCA_001738255.1 | Sake | Asia | CM005309.1:44204-44926:+ | gene-YOL142W_AKU4011 | rna-NM_001183396.2_AKU4011 | cds-NP_014499.2_AKU4011 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000172.1:9840-10562:+ | gene-YOL142W_BG1 | rna-NM_001183396.2_BG1 | cds-NP_014499.2_BG1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005517.1:45489-46211:+ | gene-YOL142W_Bruggeman | rna-NM_001183396.2_Bruggeman | cds-NP_014499.2_Bruggeman | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005533.1:44455-45177:+ | gene-YOL142W_CAT1 | rna-NM_001183396.2_CAT1 | cds-NP_014499.2_CAT1 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005373.1:38688-39410:+ | gene-YOL142W_CBS1585 | rna-NM_001183396.2_CBS1585 | cds-NP_014499.2_CBS1585 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005357.1:44543-45265:+ | gene-YOL142W_CBS436 | rna-NM_001183396.2_CBS436 | cds-NP_014499.2_CBS436 | 99.5 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005341.1:38563-39285:+ | gene-YOL142W_CBS6412 | rna-NM_001183396.2_CBS6412 | cds-NP_014499.2_CBS6412 | 99.8 | 100.0 | Mismatch | 1 | 1 | 1 | True | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005325.1:45029-45751:+ | gene-YOL142W_CBS6413 | rna-NM_001183396.2_CBS6413 | cds-NP_014499.2_CBS6413 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001536.1:55456-56178:+ | gene-YOL142W_CENPK1137D | rna-NM_001183396.2_CENPK1137D | cds-NP_014499.2_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005485.1:42474-43196:+ | gene-YOL142W_EthanolRed | rna-NM_001183396.2_EthanolRed | cds-NP_014499.2_EthanolRed | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005549.1:44497-45219:+ | gene-YOL142W_FaliES1 | rna-NM_001183396.2_FaliES1 | cds-NP_014499.2_FaliES1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000329.1:37338-38060:- | gene-YOL142W_JAY291 | rna-NM_001183396.2_JAY291 | cds-NP_014499.2_JAY291 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005421.1:50110-50832:+ | gene-YOL142W_MUCL30387 | rna-NM_001183396.2_MUCL30387 | cds-NP_014499.2_MUCL30387 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005453.1:53120-53842:+ | gene-YOL142W_MUCL30388 | rna-NM_001183396.2_MUCL30388 | cds-NP_014499.2_MUCL30388 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005293.1:46615-47337:+ | gene-YOL142W_MUCL39482 | rna-NM_001183396.2_MUCL39482 | cds-NP_014499.2_MUCL39482 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005437.1:62515-63237:+ | gene-YOL142W_MUCL42920 | rna-NM_001183396.2_MUCL42920 | cds-NP_014499.2_MUCL42920 | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011824.1:55447-56169:+ | gene-YOL142W_NCIM3186 | rna-NM_001183396.2_NCIM3186 | cds-NP_014499.2_NCIM3186 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005277.1:52682-53404:+ | gene-YOL142W_NCYC1407 | rna-NM_001183396.2_NCYC1407 | cds-NP_014499.2_NCYC1407 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994154.1:31079-31801:+ | gene-YOL142W_PE2H3 | rna-NM_001183396.2_PE2H3 | cds-NP_014499.2_PE2H3 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999886.1:48027-48749:+ | gene-YOL142W_PE2H4 | rna-NM_001183396.2_PE2H4 | cds-NP_014499.2_PE2H4 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001147.6:55558-56280:+ | gene-YOL142W_S288C | rna-NM_001183396.2_S288C | cds-NP_014499.2_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000001.1:28941-29663:+ | gene-YOL142W_SA1 | rna-NM_001183396.2_SA1 | cds-NP_014499.2_SA1 | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005501.1:43640-44362:+ | gene-YOL142W_ThermosaccDry | rna-NM_001183396.2_ThermosaccDry | cds-NP_014499.2_ThermosaccDry | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005469.1:44301-45023:+ | gene-YOL142W_VR1 | rna-NM_001183396.2_VR1 | cds-NP_014499.2_VR1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000031.1:43396-44118:+ | gene-YOL142W_ZTW1 | rna-NM_001183396.2_ZTW1 | cds-NP_014499.2_ZTW1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047501.1:45882-46604:+ | gene-YOL142W_Sparadoxus | rna-NM_001183396.2_Sparadoxus | cds-NP_014499.2_Sparadoxus | 91.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |