Gene name: CLF1
Reference locus (S288C): YLR117C
Gene biotype: protein_coding
Description: Pre-mRNA-splicing factor CLF1; Member of the NineTeen Complex (NTC); this complex contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; homolog of Drosophila crooked neck protein; interacts with U1 snRNP proteins
Top 10 interactors (score): LSM6 (0.999); SMD1 (0.999); SNT309 (0.999); BRR2 (0.999); PRP8 (0.999); PRP19 (0.999); LSM7 (0.999); CWC23 (0.999); SYF2 (0.999); PRP43 (0.999); RSE1 (0.999); CWC2 (0.999); SMX3 (0.999); PRP16 (0.999); SNU114 (0.999); LEA1 (0.999); SLU7 (0.999); NTC20 (0.999); LSM2 (0.999); PRP46 (0.999)
Homologues (species, bitscore): CRNKL1 (Homo sapiens, 450.7); Crnkl1 (Mus musculus, 449.1); crnkl1 (Danio rerio, 448.0); crnkl1 (Xenopus tropicalis, 456.1); crn (Drosophila melanogaster, 441.0); M03F8.3 (Caenorhabditis elegans, 411.8); AT5G41770 (Arabidopsis thaliana, 394.4)
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 | CM005306.1:364954-367017:- | gene-YLR117C_AKU4011 | rna-NM_001182004.1_AKU4011 | cds-NP_013218.1_AKU4011 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000212.1:328732-330795:- | gene-YLR117C_BG1 | rna-NM_001182004.1_BG1 | cds-NP_013218.1_BG1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005514.1:376078-378141:- | gene-YLR117C_Bruggeman | rna-NM_001182004.1_Bruggeman | cds-NP_013218.1_Bruggeman | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005530.1:375995-378058:- | gene-YLR117C_CAT1 | rna-NM_001182004.1_CAT1 | cds-NP_013218.1_CAT1 | 99.4 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005370.1:372097-374160:- | gene-YLR117C_CBS1585 | rna-NM_001182004.1_CBS1585 | cds-NP_013218.1_CBS1585 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005354.1:362337-364400:- | gene-YLR117C_CBS436 | rna-NM_001182004.1_CBS436 | cds-NP_013218.1_CBS436 | 99.7 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005338.1:370515-372578:- | gene-YLR117C_CBS6412 | rna-NM_001182004.1_CBS6412 | cds-NP_013218.1_CBS6412 | 99.3 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005322.1:372363-374426:- | gene-YLR117C_CBS6413 | rna-NM_001182004.1_CBS6413 | cds-NP_013218.1_CBS6413 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001533.1:367493-369556:- | gene-YLR117C_CENPK1137D | rna-NM_001182004.1_CENPK1137D | cds-NP_013218.1_CENPK1137D | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005482.1:365154-367217:- | gene-YLR117C_EthanolRed | rna-NM_001182004.1_EthanolRed | cds-NP_013218.1_EthanolRed | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005546.1:364665-366728:- | gene-YLR117C_FaliES1 | rna-NM_001182004.1_FaliES1 | cds-NP_013218.1_FaliES1 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000117.1:26467-28530:+ | gene-YLR117C_JAY291 | rna-NM_001182004.1_JAY291 | cds-NP_013218.1_JAY291 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005418.1:372370-374433:- | gene-YLR117C_MUCL30387 | rna-NM_001182004.1_MUCL30387 | cds-NP_013218.1_MUCL30387 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005450.1:381151-383214:- | gene-YLR117C_MUCL30388 | rna-NM_001182004.1_MUCL30388 | cds-NP_013218.1_MUCL30388 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005290.1:372606-374669:- | gene-YLR117C_MUCL39482 | rna-NM_001182004.1_MUCL39482 | cds-NP_013218.1_MUCL39482 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005434.1:372732-374795:- | gene-YLR117C_MUCL42920 | rna-NM_001182004.1_MUCL42920 | cds-NP_013218.1_MUCL42920 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011821.1:382445-384508:- | gene-YLR117C_NCIM3186 | rna-NM_001182004.1_NCIM3186 | cds-NP_013218.1_NCIM3186 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005274.1:364879-366942:- | gene-YLR117C_NCYC1407 | rna-NM_001182004.1_NCYC1407 | cds-NP_013218.1_NCYC1407 | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994151.1:370442-372505:- | gene-YLR117C_PE2H3 | rna-NM_001182004.1_PE2H3 | cds-NP_013218.1_PE2H3 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999883.1:370183-372246:- | gene-YLR117C_PE2H4 | rna-NM_001182004.1_PE2H4 | cds-NP_013218.1_PE2H4 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001144.5:382471-384534:- | gene-YLR117C_S288C | rna-NM_001182004.1_S288C | cds-NP_013218.1_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000055.1:8346-10409:- | gene-YLR117C_SA1 | rna-NM_001182004.1_SA1 | cds-NP_013218.1_SA1 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005498.1:365875-367938:- | gene-YLR117C_ThermosaccDry | rna-NM_001182004.1_ThermosaccDry | cds-NP_013218.1_ThermosaccDry | 99.2 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005466.1:378337-380400:- | gene-YLR117C_VR1 | rna-NM_001182004.1_VR1 | cds-NP_013218.1_VR1 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000023.1:363673-365736:- | gene-YLR117C_ZTW1 | rna-NM_001182004.1_ZTW1 | cds-NP_013218.1_ZTW1 | 99.3 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047498.1:373504-375567:- | gene-YLR117C_Sparadoxus | rna-NM_001182004.1_Sparadoxus | cds-NP_013218.1_Sparadoxus | 89.3 | 99.8 | Verified | 1 | 1 | 1 | False | True | False | False | False |