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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CNBP-USP6 (FusionGDB2 ID:HG7555TG9098)

Fusion Gene Summary for CNBP-USP6

check button Fusion gene summary
Fusion gene informationFusion gene name: CNBP-USP6
Fusion gene ID: hg7555tg9098
HgeneTgene
Gene symbol

CNBP

USP6

Gene ID

7555

9098

Gene nameCCHC-type zinc finger nucleic acid binding proteinubiquitin specific peptidase 6
SynonymsCNBP1|DM2|PROMM|RNF163|ZCCHC22|ZNF9HRP1|TRE17|TRE2|TRESMCR|Tre-2|USP6-short
Cytomap('CNBP')('USP6')

3q21.3

17p13.2

Type of geneprotein-codingprotein-coding
Descriptioncellular nucleic acid-binding proteinerythroid differentiation-relatedsterol regulatory element-binding proteinzinc finger protein 273zinc finger protein 9 (a cellular retroviral nucleic acid binding protein)ubiquitin carboxyl-terminal hydrolase 6TBC1D3 and USP32 fusiondeubiquitinating enzyme 6hyperpolymorphic gene 1proto-oncogene TRE-2ubiquitin specific peptidase 6 (Tre-2 oncogene)ubiquitin specific protease 6 (Tre-2 oncogene)ubiquitin thioesterase 6
Modification date2020032820200322
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000422453, ENST00000441626, 
ENST00000446936, ENST00000451728, 
ENST00000500450, ENST00000502976, 
ENST00000504813, 
Fusion gene scores* DoF score8 X 5 X 7=28013 X 18 X 5=1170
# samples 1218
** MAII scorelog2(12/280*10)=-1.22239242133645
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(18/1170*10)=-2.70043971814109
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CNBP [Title/Abstract] AND USP6 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCNBP(128902727)-USP6(5033660), # samples:1
CNBP(128902618)-USP6(5033660), # samples:1
CNBP(128902618)-USP6(5033229), # samples:1
Anticipated loss of major functional domain due to fusion event.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCNBP

GO:0000122

negative regulation of transcription by RNA polymerase II

23774591

TgeneUSP6

GO:0016579

protein deubiquitination

16127172

TgeneUSP6

GO:0060627

regulation of vesicle-mediated transport

15509780



check button Fusion gene information
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4aneurysmal bone cystAY624556CNBPchr3

128902727

USP6chr17

5033660
ChimerKB3..CNBPchr3

128902618

-USP6chr17

5031686

+
ChimerKB3..CNBPchr3

128902618

-USP6chr17

5033661

+


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Fusion Gene ORF analysis for CNBP-USP6

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5UTR-5UTRENST00000422453ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000422453ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000422453ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000422453ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000441626ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000441626ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000441626ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000441626ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000446936ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000446936ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000446936ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000446936ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000451728ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000451728ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000451728ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000451728ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000500450ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000500450ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000500450ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000500450ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000502976ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000502976ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000502976ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000502976ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000504813ENST00000250066CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000504813ENST00000304328CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000504813ENST00000332776CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-5UTRENST00000504813ENST00000574788CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000422453ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000422453ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000422453ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000422453ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000422453ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000422453ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000441626ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000441626ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000441626ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000441626ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000441626ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000441626ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000446936ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000446936ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000446936ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000446936ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000446936ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000446936ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000451728ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000451728ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000451728ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000451728ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000451728ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000451728ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000500450ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000500450ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000500450ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000500450ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000500450ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000500450ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000502976ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000502976ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000502976ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000502976ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000502976ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000502976ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000504813ENST00000250066CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000504813ENST00000304328CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000504813ENST00000332776CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000504813ENST00000572429CNBPchr3

128902618

-USP6chr17

5031686

+
5UTR-intronENST00000504813ENST00000572429CNBPchr3

128902618

-USP6chr17

5033661

+
5UTR-intronENST00000504813ENST00000574788CNBPchr3

128902618

-USP6chr17

5031686

+
intron-5UTRENST00000422453ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000422453ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000422453ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000422453ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000441626ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000441626ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000441626ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000441626ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000446936ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000446936ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000446936ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000446936ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000451728ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000451728ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000451728ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000451728ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000500450ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000500450ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000500450ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000500450ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000502976ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000502976ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000502976ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000502976ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000504813ENST00000250066CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000504813ENST00000304328CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000504813ENST00000332776CNBPchr3

128902727

USP6chr17

5033660

intron-5UTRENST00000504813ENST00000574788CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000422453ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000441626ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000446936ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000451728ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000500450ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000502976ENST00000572429CNBPchr3

128902727

USP6chr17

5033660

intron-intronENST00000504813ENST00000572429CNBPchr3

128902727

USP6chr17

5033660


check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for CNBP-USP6


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
CNBPchr3128902618-USP6chr175033230+7.49E-050.99992514
CNBPchr3128902618-USP6chr175033661+2.43E-050.9999757
CNBPchr3128902618-USP6chr175033230+7.49E-050.99992514
CNBPchr3128902618-USP6chr175033661+2.43E-050.9999757


check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for CNBP-USP6


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:128902727/:5033660)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

check buttonRetention 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

download page


* 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for CNBP-USP6


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for CNBP-USP6


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for CNBP-USP6


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CNBP-USP6


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCNBPC2931689Dystrophia myotonica 21CTD_human;GENOMICS_ENGLAND
TgeneC0410005Nodular fasciitis1ORPHANET