Fusion Gene Studies
in Kim Lab

FusionBase FusionGDB FusionGDB2 FusionPDB FusionNeoAntigen FusionAI FusionNW FGviewer Publication Contact
FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:DANCR-TBX3 (FusionGDB2 ID:HG57291TG6926)

Fusion Gene Summary for DANCR-TBX3

check button Fusion gene summary
Fusion gene informationFusion gene name: DANCR-TBX3
Fusion gene ID: hg57291tg6926
HgeneTgene
Gene symbol

DANCR

TBX3

Gene ID

57291

6926

Gene namedifferentiation antagonizing non-protein coding RNAT-box transcription factor 3
SynonymsAGU2|ANCR|KIAA0114|SNHG13|lncRNA-ANCRTBX3-ISO|UMS|XHL
Cytomap('DANCR')('TBX3')

4q12

12q24.21

Type of genencRNAprotein-coding
Descriptionadipogenesis up-regulated transcript 2anti-differentiation ncRNAanti-differentiation noncoding RNAsmall nucleolar RNA host gene 13 (non-protein coding)T-box transcription factor TBX3T-box 3T-box protein 3bladder cancer related protein XHL
Modification date2020032920200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000411630, 
Fusion gene scores* DoF score20 X 4 X 9=7203 X 1 X 2=6
# samples 213
** MAII scorelog2(21/720*10)=-1.77760757866355
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(3/6*10)=2.32192809488736
Context

PubMed: DANCR [Title/Abstract] AND TBX3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointDANCR(53579126)-TBX3(115110107), # 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
TgeneTBX3

GO:0000122

negative regulation of transcription by RNA polymerase II

11689487

TgeneTBX3

GO:0007569

cell aging

11689487|11748239

TgeneTBX3

GO:0008284

positive regulation of cell proliferation

11689487|11748239|12032820

TgeneTBX3

GO:0009887

animal organ morphogenesis

9207801

TgeneTBX3

GO:0035136

forelimb morphogenesis

9207801

TgeneTBX3

GO:0043066

negative regulation of apoptotic process

12032820

TgeneTBX3

GO:0045662

negative regulation of myoblast differentiation

12032820

TgeneTBX3

GO:0045787

positive regulation of cell cycle

12032820

TgeneTBX3

GO:0045892

negative regulation of transcription, DNA-templated

10468588|11689487

TgeneTBX3

GO:0090398

cellular senescence

22002537



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
ChimerDB4STADTCGA-CD-5799DANCRchr4

53579126

+TBX3chr12

115110107

-


Top

Fusion Gene ORF analysis for DANCR-TBX3

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
3UTR-3CDSENST00000411630ENST00000257566DANCRchr4

53579126

+TBX3chr12

115110107

-
3UTR-3CDSENST00000411630ENST00000349155DANCRchr4

53579126

+TBX3chr12

115110107

-

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

Top

Fusion Genomic Features for DANCR-TBX3


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)


Top

Fusion Protein Features for DANCR-TBX3


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/:53579126/:115110107)
- 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


Top

Fusion Gene Sequence for DANCR-TBX3


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.

Top

Fusion Gene PPI Analysis for DANCR-TBX3


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


Top

Related Drugs for DANCR-TBX3


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

Top

Related Diseases for DANCR-TBX3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC1866994Ulnar-mammary syndrome5CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC0006142Malignant neoplasm of breast1CGI;CTD_human
TgeneC0024623Malignant neoplasm of stomach1CTD_human
TgeneC0033578Prostatic Neoplasms1CTD_human
TgeneC0038356Stomach Neoplasms1CTD_human
TgeneC0038454Cerebrovascular accident1CTD_human
TgeneC0040128Thyroid Diseases1CTD_human
TgeneC0040427Tooth Abnormalities1CTD_human
TgeneC0206762Limb Deformities, Congenital1CTD_human
TgeneC0376358Malignant neoplasm of prostate1CTD_human
TgeneC0524730Odontome1CTD_human
TgeneC0678222Breast Carcinoma1CGI;CTD_human
TgeneC0751956Acute Cerebrovascular Accidents1CTD_human
TgeneC1257931Mammary Neoplasms, Human1CTD_human
TgeneC1458155Mammary Neoplasms1CTD_human
TgeneC1708349Hereditary Diffuse Gastric Cancer1CTD_human
TgeneC4704874Mammary Carcinoma, Human1CTD_human