Gene name: CDC39
Reference locus (S288C): YCR093W
Gene biotype: protein_coding
Description: General negative regulator of transcription subunit 1; Subunit of the CCR4-NOT1 core complex; this complex has multiple roles in the regulation of mRNA levels including regulation of transcription and destabilization of mRNA by deadenylation; basal transcription factor that increases initiation and elongation; activates the ATPase activity of Dhh1p, resulting in processing body disassembly
Top 10 interactors (score): CDC36 (0.999); CAF130 (0.999); POP2 (0.999); NOT5 (0.999); DHH1 (0.999); CAF40 (0.999); NOT3 (0.999); CCR4 (0.999); MOT2 (0.999); NGL1 (0.986); XRN1 (0.982); PAT1 (0.969); CAF16 (0.96); BTT1 (0.958); PRP8 (0.958); TRA1 (0.956); TIS11 (0.938); PUF3 (0.935); EDC3 (0.919); CTH1 (0.917)
Homologues (species, bitscore): CNOT1 (Homo sapiens, 533.9); Cnot1 (Mus musculus, 534.3); cnot1 (Danio rerio, 531.6); cnot1 (Xenopus tropicalis, 485.3); Not1 (Drosophila melanogaster, 477.6); let-711 (Caenorhabditis elegans, 376.7); AT1G02080 (Arabidopsis thaliana, 500.4)
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 | CM005297.1:275057-281383:+ | gene-YCR093W_AKU4011 | rna-NM_001178799.1_AKU4011 | cds-NP_010017.2_AKU4011 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| BG1 | GCA_001932575.1 | Bioethanol | South America | MSHP01000067.1:133359-139688:+ | gene-YCR093W_BG1 | rna-NM_001178799.1_BG1 | cds-NP_010017.2_BG1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Bruggeman | GCA_001738585.1 | Bread | Not Applicable | CM005505.1:271869-278195:+ | gene-YCR093W_Bruggeman | rna-NM_001178799.1_Bruggeman | cds-NP_010017.2_Bruggeman | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CAT1 | GCA_001738705.1 | Bioethanol | South America | CM005521.1:281864-288193:+ | gene-YCR093W_CAT1 | rna-NM_001178799.1_CAT1 | cds-NP_010017.2_CAT1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS1585 | GCA_001738375.1 | Sake | Asia | CM005361.1:269804-276130:+ | gene-YCR093W_CBS1585 | rna-NM_001178799.1_CBS1585 | cds-NP_010017.2_CBS1585 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CBS436 | GCA_001738355.1 | Sake | Asia | CM005345.1:281196-287522:+ | gene-YCR093W_CBS436 | rna-NM_001178799.1_CBS436 | cds-NP_010017.2_CBS436 | 99.9 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6412 | GCA_001738345.1 | Sake | Asia | CM005329.1:260951-267277:+ | gene-YCR093W_CBS6412 | rna-NM_001178799.1_CBS6412 | cds-NP_010017.2_CBS6412 | 99.6 | 100.0 | Mismatch | 1 | 1 | 1 | False | True | False | False | False |
| CBS6413 | GCA_001738265.1 | Sake | Asia | CM005313.1:275503-281829:+ | gene-YCR093W_CBS6413 | rna-NM_001178799.1_CBS6413 | cds-NP_010017.2_CBS6413 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| CENPK1137D | GCA_000269885.1 | Laboratory | Not Applicable | CM001524.1:279345-285674:+ | gene-YCR093W_CENPK1137D | rna-NM_001178799.1_CENPK1137D | cds-NP_010017.2_CENPK1137D | 99.7 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| EthanolRed | GCA_001738615.1 | Bioethanol | Asia | CM005473.1:270702-277028:+ | gene-YCR093W_EthanolRed | rna-NM_001178799.1_EthanolRed | cds-NP_010017.2_EthanolRed | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| FaliES1 | GCA_001738715.1 | Bioethanol | Asia | CM005537.1:276802-283128:+ | gene-YCR093W_FaliES1 | rna-NM_001178799.1_FaliES1 | cds-NP_010017.2_FaliES1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| JAY291 | GCA_000182315.2 | Bioethanol | South America | ACFL01000323.1:6680-13009:- | gene-YCR093W_JAY291 | rna-NM_001178799.1_JAY291 | cds-NP_010017.2_JAY291 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30387 | GCA_001738515.1 | Bread | Europe | CM005409.1:268670-274996:+ | gene-YCR093W_MUCL30387 | rna-NM_001178799.1_MUCL30387 | cds-NP_010017.2_MUCL30387 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL30388 | GCA_001738495.1 | Bread | Europe | CM005441.1:267491-273817:+ | gene-YCR093W_MUCL30388 | rna-NM_001178799.1_MUCL30388 | cds-NP_010017.2_MUCL30388 | 99.9 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL39482 | GCA_001738235.1 | Sake | Asia | CM005281.1:276448-282774:+ | gene-YCR093W_MUCL39482 | rna-NM_001178799.1_MUCL39482 | cds-NP_010017.2_MUCL39482 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| MUCL42920 | GCA_001738485.1 | Bread | Europe | CM005425.1:272659-278985:+ | gene-YCR093W_MUCL42920 | rna-NM_001178799.1_MUCL42920 | cds-NP_010017.2_MUCL42920 | 99.8 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCIM3186 | GCA_001029075.1 | Bioethanol | Asia | CP011812.1:279749-286075:+ | gene-YCR093W_NCIM3186 | rna-NM_001178799.1_NCIM3186 | cds-NP_010017.2_NCIM3186 | 97.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| NCYC1407 | GCA_001738225.1 | Sake | Asia | CM005265.1:277091-283417:+ | gene-YCR093W_NCYC1407 | rna-NM_001178799.1_NCYC1407 | cds-NP_010017.2_NCYC1407 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H3 | GCA_905220325.1 | Bioethanol | South America | HG994142.1:291377-297706:+ | gene-YCR093W_PE2H3 | rna-NM_001178799.1_PE2H3 | cds-NP_010017.2_PE2H3 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| PE2H4 | GCA_905220315.1 | Bioethanol | South America | LR999874.1:279929-286258:+ | gene-YCR093W_PE2H4 | rna-NM_001178799.1_PE2H4 | cds-NP_010017.2_PE2H4 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| S288C | GCF_000146045.2 | Laboratory | Not applicable | NC_001135.5:280117-286443:+ | gene-YCR093W_S288C | rna-NM_001178799.1_S288C | cds-NP_010017.2_S288C | 100.0 | 100.0 | Verified | 1 | 1 | 1 | True | True | False | False | False |
| SA1 | GCA_004114265.1 | Bioethanol | South America | SDIA01000044.1:80103-86429:+ | gene-YCR093W_SA1 | rna-NM_001178799.1_SA1 | cds-NP_010017.2_SA1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ThermosaccDry | GCA_001738605.1 | Bioethanol | Asia | CM005489.1:276756-283082:+ | gene-YCR093W_ThermosaccDry | rna-NM_001178799.1_ThermosaccDry | cds-NP_010017.2_ThermosaccDry | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| VR1 | GCA_001738595.1 | Bioethanol | South America | CM005457.1:286917-293246:+ | gene-YCR093W_VR1 | rna-NM_001178799.1_VR1 | cds-NP_010017.2_VR1 | 99.5 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| ZTW1 | GCA_000308935.1 | Bioethanol | Asia | AMDD01000004.1:273460-279786:+ | gene-YCR093W_ZTW1 | rna-NM_001178799.1_ZTW1 | cds-NP_010017.2_ZTW1 | 99.6 | 100.0 | Verified | 1 | 1 | 1 | False | True | False | False | False |
| Sparadoxus | GCF_002079055.1 | Not applicable | Not applicable | NC_047489.1:307832-314164:+ | gene-YCR093W_Sparadoxus | rna-NM_001178799.1_Sparadoxus | cds-NP_010017.2_Sparadoxus | 90.4 | 99.9 | Verified | 1 | 1 | 1 | False | True | False | False | False |