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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 CNOT6 |
 Gene summary |
| Gene information | Gene symbol | CNOT6 | Gene ID | 57472 |
| Gene name | CCR4-NOT transcription complex subunit 6 | |
| Synonyms | CCR4|Ccr4a | |
| Cytomap | 5q35.3 | |
| Type of gene | protein-coding | |
| Description | CCR4-NOT transcription complex subunit 6carbon catabolite repression 4 proteincarbon catabolite repressor protein 4 homologcytoplasmic deadenylase | |
| Modification date | 20180522 | |
| UniProtAcc | Q9ULM6 | |
| Context | PubMed: CNOT6 [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 |
| CNOT6 | GO:0043928 | exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay | 20065043 |
| CNOT6 | GO:2000327 | positive regulation of ligand-dependent nuclear receptor transcription coactivator activity | 18180299 |
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Exon skipping events across known transcript of Ensembl for CNOT6 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 CNOT6 |
| 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 CNOT6 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_440375 | 5 | 179921706:179921763:179922420:179922588:179956274:179956388 | 179922420:179922588 | ENSG00000113300.7 | ENST00000393356.1 |
| exon_skip_440377 | 5 | 179921706:179921763:179956274:179956388:179976930:179976995 | 179956274:179956388 | ENSG00000113300.7 | ENST00000502447.1,ENST00000261951.4 |
| exon_skip_440379 | 5 | 179956274:179956388:179976930:179977117:179991488:179991578 | 179976930:179977117 | ENSG00000113300.7 | ENST00000502447.1 |
| exon_skip_440382 | 5 | 179976930:179977117:179980385:179980471:179991488:179991578 | 179980385:179980471 | ENSG00000113300.7 | ENST00000393356.1,ENST00000261951.4 |
| exon_skip_440387 | 5 | 179991674:179991743:179992819:179992977:179994087:179994242 | 179992819:179992977 | ENSG00000113300.7 | ENST00000393356.1,ENST00000504343.1,ENST00000261951.4 |
| exon_skip_440389 | 5 | 179994087:179994242:179994848:179995003:179996109:179996340 | 179994848:179995003 | ENSG00000113300.7 | ENST00000393356.1,ENST00000261951.4 |
| exon_skip_440393 | 5 | 179996109:179996340:179998229:179998432:180000987:180001269 | 179998229:179998432 | ENSG00000113300.7 | ENST00000393356.1,ENST00000261951.4 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for CNOT6 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_440375 | 5 | 179921706:179921763:179922420:179922588:179956274:179956388 | 179922420:179922588 | ENSG00000113300.7 | ENST00000393356.1 |
| exon_skip_440377 | 5 | 179921706:179921763:179956274:179956388:179976930:179976995 | 179956274:179956388 | ENSG00000113300.7 | ENST00000261951.4,ENST00000502447.1 |
| exon_skip_440379 | 5 | 179956274:179956388:179976930:179977117:179991488:179991578 | 179976930:179977117 | ENSG00000113300.7 | ENST00000502447.1 |
| exon_skip_440382 | 5 | 179976930:179977117:179980385:179980471:179991488:179991578 | 179980385:179980471 | ENSG00000113300.7 | ENST00000261951.4,ENST00000393356.1 |
| exon_skip_440387 | 5 | 179991674:179991743:179992819:179992977:179994087:179994242 | 179992819:179992977 | ENSG00000113300.7 | ENST00000261951.4,ENST00000393356.1,ENST00000504343.1 |
| exon_skip_440389 | 5 | 179994087:179994242:179994848:179995003:179996109:179996340 | 179994848:179995003 | ENSG00000113300.7 | ENST00000261951.4,ENST00000393356.1 |
| exon_skip_440393 | 5 | 179996109:179996340:179998229:179998432:180000987:180001269 | 179998229:179998432 | ENSG00000113300.7 | ENST00000261951.4,ENST00000393356.1 |
| 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 CNOT6 |
| 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 |
| ENST00000261951 | 179956274 | 179956388 | 5CDS-5UTR |
| ENST00000393356 | 179922420 | 179922588 | 5UTR-5UTR |
| ENST00000261951 | 179980385 | 179980471 | Frame-shift |
| ENST00000393356 | 179980385 | 179980471 | Frame-shift |
| ENST00000261951 | 179992819 | 179992977 | Frame-shift |
| ENST00000393356 | 179992819 | 179992977 | Frame-shift |
| ENST00000261951 | 179994848 | 179995003 | Frame-shift |
| ENST00000393356 | 179994848 | 179995003 | Frame-shift |
| ENST00000261951 | 179998229 | 179998432 | Frame-shift |
| ENST00000393356 | 179998229 | 179998432 | Frame-shift |
| 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 |
| ENST00000261951 | 179956274 | 179956388 | 5CDS-5UTR |
| ENST00000393356 | 179922420 | 179922588 | 5UTR-5UTR |
| ENST00000261951 | 179980385 | 179980471 | Frame-shift |
| ENST00000393356 | 179980385 | 179980471 | Frame-shift |
| ENST00000261951 | 179992819 | 179992977 | Frame-shift |
| ENST00000393356 | 179992819 | 179992977 | Frame-shift |
| ENST00000261951 | 179994848 | 179995003 | Frame-shift |
| ENST00000393356 | 179994848 | 179995003 | Frame-shift |
| ENST00000261951 | 179998229 | 179998432 | Frame-shift |
| ENST00000393356 | 179998229 | 179998432 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for CNOT6 |
| 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 |
| 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 |
| 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 CNOT6 |
| - 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. |
CNOT6_LUAD_exon_skip_440379_psi_boxplot.png |
| - 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-G3-A3CJ-01 | exon_skip_440377 | 179956275 | 179956388 | 179956348 | 179956348 | Frame_Shift_Del | A | - | p.A24fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_440379 | 179976931 | 179977117 | 179977071 | 179977071 | Frame_Shift_Del | A | - | p.K85fs |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_440382 | 179980386 | 179980471 | 179980437 | 179980437 | Frame_Shift_Del | A | - | p.G117fs |
| STAD | TCGA-HJ-7597-01 | exon_skip_440387 | 179992820 | 179992977 | 179992921 | 179992921 | Frame_Shift_Del | A | - | p.K221fs |
| STAD | TCGA-HJ-7597-01 | exon_skip_440387 | 179992820 | 179992977 | 179992921 | 179992921 | Frame_Shift_Del | A | - | p.R220fs |
| UCS | TCGA-N5-A4RD-01 | exon_skip_440393 | 179998230 | 179998432 | 179998267 | 179998268 | Frame_Shift_Del | AA | - | p.432_432del |
| UCS | TCGA-N5-A4RD-01 | exon_skip_440393 | 179998230 | 179998432 | 179998267 | 179998268 | Frame_Shift_Del | AA | - | p.TN432fs |
| UCEC | TCGA-A5-A0GP-01 | exon_skip_440382 | 179980386 | 179980471 | 179980414 | 179980414 | Nonsense_Mutation | C | T | p.R110* |
| UCEC | TCGA-D1-A17U-01 | exon_skip_440382 | 179980386 | 179980471 | 179980414 | 179980414 | Nonsense_Mutation | C | T | p.R110* |
| LUAD | TCGA-49-4505-01 | exon_skip_440379 | 179976931 | 179977117 | 179976929 | 179976929 | Splice_Site | A | G | p.G38_splice |
| LIHC | TCGA-2Y-A9H3-01 | exon_skip_440382 | 179980386 | 179980471 | 179980384 | 179980384 | Splice_Site | A | G | . |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
 | Sample: TCGA-49-4505-01 |
| Cancer type: LUAD | |
| ESID: exon_skip_440379 | |
| Skipped exon start: 179976931 | |
| Skipped exon end: 179977117 | |
| Mutation start: 179976929 | |
| Mutation end: 179976929 | |
| Mutation type: Splice_Site | |
| Reference seq: A | |
| Mutation seq: G | |
| AAchange: p.G38_splice | |
exon_skip_440379_LUAD_TCGA-49-4505-01.png | |
| - 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 |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179976931 | 179977117 | 179977064 | 179977065 | Frame_Shift_Del | AT | - | p.SS82fs |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179976931 | 179977117 | 179977066 | 179977067 | Frame_Shift_Ins | - | CA | p.N84fs |
| COLO792_SKIN | 179956275 | 179956388 | 179956307 | 179956307 | Missense_Mutation | C | T | p.P11S |
| CCK81_LARGE_INTESTINE | 179956275 | 179956388 | 179956331 | 179956331 | Missense_Mutation | T | G | p.S19A |
| FTC133_THYROID | 179956275 | 179956388 | 179956385 | 179956385 | Missense_Mutation | A | G | p.S37G |
| RERFLCAD1_LUNG | 179976931 | 179977117 | 179976936 | 179976936 | Missense_Mutation | G | T | p.V40L |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179976931 | 179977117 | 179976951 | 179976951 | Missense_Mutation | G | T | p.A45S |
| A498_KIDNEY | 179976931 | 179977117 | 179976952 | 179976952 | Missense_Mutation | C | A | p.A45E |
| SNU1079_BILIARY_TRACT | 179976931 | 179977117 | 179977047 | 179977047 | Missense_Mutation | G | A | p.V77M |
| SKMEL24_SKIN | 179976931 | 179977117 | 179977077 | 179977077 | Missense_Mutation | C | T | p.R87C |
| IGR1_SKIN | 179980386 | 179980471 | 179980402 | 179980402 | Missense_Mutation | A | G | p.N106D |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 179980386 | 179980471 | 179980402 | 179980402 | Missense_Mutation | A | T | p.N106Y |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179980386 | 179980471 | 179980402 | 179980402 | Missense_Mutation | A | T | p.N106Y |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179980386 | 179980471 | 179980409 | 179980409 | Missense_Mutation | T | A | p.L108Q |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 179980386 | 179980471 | 179980409 | 179980409 | Missense_Mutation | T | A | p.L108Q |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 179980386 | 179980471 | 179980462 | 179980462 | Missense_Mutation | G | A | p.G126S |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 179980386 | 179980471 | 179980462 | 179980462 | Missense_Mutation | G | A | p.G126S |
| HEC1A_ENDOMETRIUM | 179992820 | 179992977 | 179992843 | 179992843 | Missense_Mutation | A | G | p.N195D |
| SNU1040_LARGE_INTESTINE | 179992820 | 179992977 | 179992894 | 179992894 | Missense_Mutation | T | G | p.S212A |
| WSUNHL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 179994849 | 179995003 | 179994898 | 179994898 | Missense_Mutation | G | A | p.A308T |
| HEC265_ENDOMETRIUM | 179994849 | 179995003 | 179995000 | 179995000 | Missense_Mutation | C | T | p.P342S |
| SNUC5_LARGE_INTESTINE | 179998230 | 179998432 | 179998418 | 179998418 | Missense_Mutation | A | G | p.T483A |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for CNOT6 |
| 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 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CNOT6 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for CNOT6 |
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RelatedDrugs for CNOT6 |
| 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 CNOT6 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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