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Center for Computational Systems Medicine
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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:BCL3-CEACAM16 (FusionGDB2 ID:HG602TG388551)

Fusion Gene Summary for BCL3-CEACAM16

check button Fusion gene summary
Fusion gene informationFusion gene name: BCL3-CEACAM16
Fusion gene ID: hg602tg388551
HgeneTgene
Gene symbol

BCL3

CEACAM16

Gene ID

602

388551

Gene nameBCL3 transcription coactivatorCEA cell adhesion molecule 16, tectorial membrane component
SynonymsBCL4|D19S37CEAL2|DFNA4B|DFNB113
Cytomap('BCL3')('CEACAM16')

19q13.32

19q13.31-q13.32

Type of geneprotein-codingprotein-coding
DescriptionB-cell lymphoma 3 proteinB cell CLL/lymphoma 3B-cell leukemia/lymphoma 3B-cell lymphoma 3-encoded proteinBCL-3chronic lymphatic leukemia proteinproto-oncogene BCL3carcinoembryonic antigen-related cell adhesion molecule 16carcinoembryonic antigen like-2 proteincarcinoembryonic antigen related cell adhesion molecule 16
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000164227, ENST00000487394, 
Fusion gene scores* DoF score8 X 9 X 6=4326 X 5 X 6=180
# samples 97
** MAII scorelog2(9/432*10)=-2.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/180*10)=-1.36257007938471
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: BCL3 [Title/Abstract] AND CEACAM16 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointBCL3(45259597)-CEACAM16(45204631), # samples:2
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
HgeneBCL3

GO:0006351

transcription, DNA-templated

16306601

HgeneBCL3

GO:0006974

cellular response to DNA damage stimulus

16384933

HgeneBCL3

GO:0007249

I-kappaB kinase/NF-kappaB signaling

8196632

HgeneBCL3

GO:0009615

response to virus

16306601

HgeneBCL3

GO:0010225

response to UV-C

16384933

HgeneBCL3

GO:0042981

regulation of apoptotic process

16732314

HgeneBCL3

GO:0043066

negative regulation of apoptotic process

16384933

HgeneBCL3

GO:0045892

negative regulation of transcription, DNA-templated

16306601

HgeneBCL3

GO:0045893

positive regulation of transcription, DNA-templated

16384933



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
ChimerDB4CESCTCGA-VS-A8EC-01ABCL3chr19

45259597

+CEACAM16chr19

45204631

+


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Fusion Gene ORF analysis for BCL3-CEACAM16

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
5CDS-5UTRENST00000164227ENST00000405314BCL3chr19

45259597

+CEACAM16chr19

45204631

+
5CDS-5UTRENST00000164227ENST00000587331BCL3chr19

45259597

+CEACAM16chr19

45204631

+
intron-5UTRENST00000487394ENST00000405314BCL3chr19

45259597

+CEACAM16chr19

45204631

+
intron-5UTRENST00000487394ENST00000587331BCL3chr19

45259597

+CEACAM16chr19

45204631

+

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 BCL3-CEACAM16


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)
BCL3chr1945259597+CEACAM16chr1945204629+4.00E-101
BCL3chr1945259597+CEACAM16chr1945204629+4.00E-101


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 BCL3-CEACAM16


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/:45259597/:45204631)
- 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 BCL3-CEACAM16


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 BCL3-CEACAM16


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 BCL3-CEACAM16


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 BCL3-CEACAM16


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneBCL3C0004153Atherosclerosis1CTD_human
HgeneBCL3C0242339Dyslipidemias1CTD_human
HgeneBCL3C0598784Dyslipoproteinemias1CTD_human
HgeneBCL3C1563937Atherogenesis1CTD_human
TgeneC3711374Nonsyndromic Deafness4CLINGEN
TgeneC3281297DEAFNESS, AUTOSOMAL DOMINANT 4B3CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneC3281298Sensorineural hearing loss, progressive bilateral postlingual1GENOMICS_ENGLAND