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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for CNOT4 |
 Gene summary |
| Gene information | Gene symbol | CNOT4 | Gene ID | 4850 |
| Gene name | CCR4-NOT transcription complex subunit 4 | |
| Synonyms | CLONE243|NOT4|NOT4H | |
| Cytomap | 7q33 | |
| Type of gene | protein-coding | |
| Description | CCR4-NOT transcription complex subunit 4CCR4-associated factor 4E3 ubiquitin-protein ligase CNOT4NOT4 (negative regulator of transcription 4, yeast) homologRING-type E3 ubiquitin transferase CNOT4potential transcriptional repressor NOT4Hp | |
| Modification date | 20180523 | |
| UniProtAcc | O95628 | |
| Context | PubMed: CNOT4 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| CNOT4 | GO:0051865 | protein autoubiquitination | 15001359 |
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Exon skipping events across known transcript of Ensembl for CNOT4 from UCSC genome browser |
| Skipped exons in TCGA and GTEx based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Gene isoform structures and expression levels for CNOT4 |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for CNOT4 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_479603 | 7 | 135047750:135047938:135048605:135048818:135078669:135079167 | 135048605:135048818 | ENSG00000080802.14 | ENST00000541284.1,ENST00000451834.1 |
| exon_skip_479605 | 7 | 135079051:135079167:135080385:135080635:135082920:135082978 | 135080385:135080635 | ENSG00000080802.14 | ENST00000414802.1,ENST00000361528.4,ENST00000315544.5,ENST00000428680.2,ENST00000541284.1,ENST00000356162.4,ENST00000451834.1,ENST00000423368.2 |
| exon_skip_479609 | 7 | 135098236:135098362:135099079:135099181:135099924:135100011 | 135099079:135099181 | ENSG00000080802.14 | ENST00000414802.1,ENST00000361528.4,ENST00000315544.5,ENST00000428680.2,ENST00000541284.1,ENST00000356162.4,ENST00000451834.1,ENST00000423368.2 |
| exon_skip_479612 | 7 | 135099079:135099181:135099924:135100011:135106904:135107102 | 135099924:135100011 | ENSG00000080802.14 | ENST00000414802.1,ENST00000361528.4,ENST00000315544.5,ENST00000428680.2,ENST00000541284.1,ENST00000356162.4,ENST00000451834.1,ENST00000423368.2 |
| exon_skip_479613 | 7 | 135107062:135107102:135122905:135123171:135194636:135194686 | 135122905:135123171 | ENSG00000080802.14 | ENST00000361528.4,ENST00000315544.5,ENST00000428680.2,ENST00000356162.4,ENST00000451834.1,ENST00000423368.2 |
| exon_skip_479614 | 7 | 135122905:135123171:135193818:135193905:135194636:135194686 | 135193818:135193905 | ENSG00000080802.14 | ENST00000498534.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for CNOT4 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_479603 | 7 | 135047750:135047938:135048605:135048818:135078669:135079167 | 135048605:135048818 | ENSG00000080802.14 | ENST00000541284.1,ENST00000451834.1 |
| exon_skip_479605 | 7 | 135079051:135079167:135080385:135080635:135082920:135082978 | 135080385:135080635 | ENSG00000080802.14 | ENST00000541284.1,ENST00000451834.1,ENST00000423368.2,ENST00000361528.4,ENST00000414802.1,ENST00000356162.4,ENST00000428680.2,ENST00000315544.5 |
| exon_skip_479609 | 7 | 135098236:135098362:135099079:135099181:135099924:135100011 | 135099079:135099181 | ENSG00000080802.14 | ENST00000541284.1,ENST00000451834.1,ENST00000423368.2,ENST00000361528.4,ENST00000414802.1,ENST00000356162.4,ENST00000428680.2,ENST00000315544.5 |
| exon_skip_479612 | 7 | 135099079:135099181:135099924:135100011:135106904:135107102 | 135099924:135100011 | ENSG00000080802.14 | ENST00000541284.1,ENST00000451834.1,ENST00000423368.2,ENST00000361528.4,ENST00000414802.1,ENST00000356162.4,ENST00000428680.2,ENST00000315544.5 |
| exon_skip_479613 | 7 | 135107062:135107102:135122905:135123171:135194636:135194686 | 135122905:135123171 | ENSG00000080802.14 | ENST00000451834.1,ENST00000423368.2,ENST00000361528.4,ENST00000356162.4,ENST00000428680.2,ENST00000315544.5 |
| exon_skip_479614 | 7 | 135122905:135123171:135193818:135193905:135194636:135194686 | 135193818:135193905 | ENSG00000080802.14 | ENST00000498534.1 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for CNOT4 |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000315544 | 135122905 | 135123171 | 3UTR-3CDS |
| ENST00000315544 | 135080385 | 135080635 | Frame-shift |
| ENST00000315544 | 135099079 | 135099181 | In-frame |
| ENST00000315544 | 135099924 | 135100011 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000315544 | 135122905 | 135123171 | 3UTR-3CDS |
| ENST00000315544 | 135080385 | 135080635 | Frame-shift |
| ENST00000315544 | 135099079 | 135099181 | In-frame |
| ENST00000315544 | 135099924 | 135100011 | In-frame |
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Infer the effects of exon skipping event on protein functional features for CNOT4 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000315544 | 4648 | 575 | 135099924 | 135100011 | 653 | 739 | 124 | 153 |
| ENST00000315544 | 4648 | 575 | 135099079 | 135099181 | 740 | 841 | 153 | 187 |
| Loci of skipped exons in GTEx across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000315544 | 4648 | 575 | 135099924 | 135100011 | 653 | 739 | 124 | 153 |
| ENST00000315544 | 4648 | 575 | 135099079 | 135099181 | 740 | 841 | 153 | 187 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| Lost protein functional features of individual exon skipping events in GTEx. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
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SNVs in the skipped exons for CNOT4 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| LIHC | TCGA-DD-A1EG-01 | exon_skip_479605 | 135080386 | 135080635 | 135080541 | 135080541 | Frame_Shift_Del | G | - | p.P322fs |
| STAD | TCGA-CG-4437-01 | exon_skip_479613 | 135122906 | 135123171 | 135122926 | 135122932 | Frame_Shift_Del | GCCCATT | - | p.N50fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_479613 | 135122906 | 135123171 | 135122931 | 135122931 | Frame_Shift_Del | T | - | p.N50fs |
| LIHC | TCGA-ED-A4XI-01 | exon_skip_479613 | 135122906 | 135123171 | 135122994 | 135122994 | Frame_Shift_Del | A | - | p.F29fs |
| LUAD | TCGA-73-4658-01 | exon_skip_479605 | 135080386 | 135080635 | 135080502 | 135080502 | Nonsense_Mutation | G | C | p.S338* |
| HNSC | TCGA-QK-A6VC-01 | exon_skip_479605 | 135080386 | 135080635 | 135080595 | 135080595 | Nonsense_Mutation | G | C | p.S304* |
| LUSC | TCGA-66-2765-01 | exon_skip_479609 | 135099080 | 135099181 | 135099078 | 135099078 | Splice_Site | A | C | p.K187_splice |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - Non-synonymous mutations located in the skipped exons in CCLE. |
| Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| HEC151_ENDOMETRIUM | 135080386 | 135080635 | 135080529 | 135080530 | Frame_Shift_Ins | - | C | p.A329fs |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 135048606 | 135048818 | 135048654 | 135048654 | Missense_Mutation | G | C | p.L595V |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135048606 | 135048818 | 135048654 | 135048654 | Missense_Mutation | G | C | p.L595V |
| JHUEM7_ENDOMETRIUM | 135048606 | 135048818 | 135048716 | 135048716 | Missense_Mutation | G | T | p.S574Y |
| ESS1_ENDOMETRIUM | 135048606 | 135048818 | 135048792 | 135048792 | Missense_Mutation | T | G | p.N549H |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 135048606 | 135048818 | 135048812 | 135048812 | Missense_Mutation | C | T | p.S542N |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135048606 | 135048818 | 135048812 | 135048812 | Missense_Mutation | C | T | p.S542N |
| OCIAML5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135048606 | 135048818 | 135048812 | 135048812 | Missense_Mutation | C | T | p.S542N |
| HUH28_BILIARY_TRACT | 135080386 | 135080635 | 135080391 | 135080391 | Missense_Mutation | G | T | p.T375K |
| WM88_SKIN | 135080386 | 135080635 | 135080398 | 135080398 | Missense_Mutation | G | A | p.L373F |
| MOLT3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135080386 | 135080635 | 135080547 | 135080547 | Missense_Mutation | C | T | p.R323Q |
| MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135080386 | 135080635 | 135080547 | 135080547 | Missense_Mutation | C | T | p.R323Q |
| RKO_LARGE_INTESTINE | 135080386 | 135080635 | 135080553 | 135080553 | Missense_Mutation | C | A | p.S321I |
| RKO_LARGE_INTESTINE | 135080386 | 135080635 | 135080553 | 135080554 | Missense_Mutation | CT | AA | p.S321F |
| RKO_LARGE_INTESTINE | 135080386 | 135080635 | 135080554 | 135080554 | Missense_Mutation | T | A | p.S321C |
| PCM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135080386 | 135080635 | 135080565 | 135080565 | Missense_Mutation | G | A | p.S317L |
| RERFLCAD2_LUNG | 135080386 | 135080635 | 135080565 | 135080565 | Missense_Mutation | G | A | p.S317L |
| RL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135080386 | 135080635 | 135080576 | 135080576 | Missense_Mutation | G | C | p.I313M |
| JURKAT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135080386 | 135080635 | 135080629 | 135080629 | Missense_Mutation | T | G | p.N296H |
| UMCHOR1_BONE | 135099925 | 135100011 | 135099932 | 135099932 | Missense_Mutation | C | A | p.G151V |
| KE39_STOMACH | 135122906 | 135123171 | 135122994 | 135122994 | Missense_Mutation | A | C | p.F29C |
| SUDHL8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135122906 | 135123171 | 135123006 | 135123006 | Missense_Mutation | T | C | p.D25G |
| SCS214_SOFT_TISSUE | 135122906 | 135123171 | 135123046 | 135123046 | Missense_Mutation | C | T | p.V12M |
| SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 135099925 | 135100011 | 135100002 | 135100002 | Nonsense_Mutation | G | A | p.R128* |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for CNOT4 |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
| exon_skip_479603 | 7 | 135047750:135047938:135048605:135048818:135078669:135079167 | 135048605:135048818 | ENST00000541284.1,ENST00000451834.1 | KIRP | rs3812265 | chr7:135048804 | C/T | 9.28e-04 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CNOT4 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CNOT4 |
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RelatedDrugs for CNOT4 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for CNOT4 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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