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Fusion gene ID: 6995 |
FusionGeneSummary for CHD6_CHRNB4 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CHD6_CHRNB4 | Fusion gene ID: 6995 | Hgene | Tgene | Gene symbol | CHD6 | CHRNB4 | Gene ID | 84181 | 1143 |
| Gene name | chromodomain helicase DNA binding protein 6 | cholinergic receptor nicotinic beta 4 subunit | |
| Synonyms | CHD-6|CHD5|RIGB | - | |
| Cytomap | 20q12 | 15q25.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | chromodomain-helicase-DNA-binding protein 6ATP-dependent helicase CHD6helicase C-terminal domain- and SNF2 N-terminal domain-containing proteinradiation-induced gene B protein | neuronal acetylcholine receptor subunit beta-4acetylcholine receptor, nicotinic, beta 4 (neuronal)cholinergic receptor, nicotinic, beta 4 (neuronal)cholinergic receptor, nicotinic, beta polypeptide 4neuronal nicotinic receptor beta 4 subunit | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | Q8TD26 | P30926 | |
| Ensembl transtripts involved in fusion gene | ENST00000373233, ENST00000309279, ENST00000373222, ENST00000480022, | ENST00000261751, ENST00000412074, ENST00000560511, | |
| Fusion gene scores | * DoF score | 22 X 14 X 10=3080 | 2 X 2 X 2=8 |
| # samples | 25 | 2 | |
| ** MAII score | log2(25/3080*10)=-3.62293035092018 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(2/8*10)=1.32192809488736 | |
| Context | PubMed: CHD6 [Title/Abstract] AND CHRNB4 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Tgene | CHRNB4 | GO:0007165 | signal transduction | 8906617 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | RV | BRCA | TCGA-C8-A8HR-01A | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000373233 | ENST00000261751 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| Frame-shift | ENST00000373233 | ENST00000412074 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| 5CDS-5UTR | ENST00000373233 | ENST00000560511 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| Frame-shift | ENST00000309279 | ENST00000261751 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| Frame-shift | ENST00000309279 | ENST00000412074 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| 5CDS-5UTR | ENST00000309279 | ENST00000560511 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| Frame-shift | ENST00000373222 | ENST00000261751 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| Frame-shift | ENST00000373222 | ENST00000412074 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| 5CDS-5UTR | ENST00000373222 | ENST00000560511 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| intron-3CDS | ENST00000480022 | ENST00000261751 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| intron-3CDS | ENST00000480022 | ENST00000412074 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
| intron-5UTR | ENST00000480022 | ENST00000560511 | CHD6 | chr20 | 40141485 | - | CHRNB4 | chr15 | 78923674 | - |
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FusionProtFeatures for CHD6_CHRNB4 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| CHD6 | CHRNB4 |
| After binding acetylcholine, the AChR responds by anextensive change in conformation that affects all subunits andleads to opening of an ion-conducting channel across the plasmamembrane. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at . * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for CHD6_CHRNB4 |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for CHD6_CHRNB4 |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| CHD6 | AIRE, ARAF, TOLLIP, CHD3, ATXN1L, ZFYVE9, SOX2, HIST3H3, HIST1H2BG, SEC16A, RACGAP1, PAPD5, CDCA5, ESR1, EGFR | CHRNB4 | TRIM25 |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for CHD6_CHRNB4 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Tgene | CHRNB4 | P30926 | DB00184 | Nicotine | Neuronal acetylcholine receptor subunit beta-4 | small molecule | approved |
| Tgene | CHRNB4 | P30926 | DB00514 | Dextromethorphan | Neuronal acetylcholine receptor subunit beta-4 | small molecule | approved |
| Tgene | CHRNB4 | P30926 | DB00674 | Galantamine | Neuronal acetylcholine receptor subunit beta-4 | small molecule | approved |
| Tgene | CHRNB4 | P30926 | DB00898 | Ethanol | Neuronal acetylcholine receptor subunit beta-4 | small molecule | approved |
| Tgene | CHRNB4 | P30926 | DB01227 | Levomethadyl Acetate | Neuronal acetylcholine receptor subunit beta-4 | small molecule | approved|investigational |
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RelatedDiseases for CHD6_CHRNB4 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | CHD6 | C0005695 | Bladder Neoplasm | 1 | CTD_human |
| Hgene | CHD6 | C0007138 | Carcinoma, Transitional Cell | 1 | CTD_human |
| Hgene | CHD6 | C0027819 | Neuroblastoma | 1 | CTD_human |
| Tgene | CHRNB4 | C0001973 | Alcoholic Intoxication, Chronic | 3 | PSYGENET |
| Tgene | CHRNB4 | C0036572 | Seizures | 2 | CTD_human |
| Tgene | CHRNB4 | C0600427 | Cocaine Dependence | 2 | PSYGENET |
| Tgene | CHRNB4 | C0024121 | Lung Neoplasms | 1 | CTD_human |
| Tgene | CHRNB4 | C0038587 | Substance Withdrawal Syndrome | 1 | CTD_human |
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