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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:ATF2-DIRC3 (FusionGDB2 ID:HG1386TG729582)

Fusion Gene Summary for ATF2-DIRC3

check button Fusion gene summary
Fusion gene informationFusion gene name: ATF2-DIRC3
Fusion gene ID: hg1386tg729582
HgeneTgene
Gene symbol

ATF2

DIRC3

Gene ID

1386

729582

Gene nameactivating transcription factor 2disrupted in renal carcinoma 3
SynonymsCRE-BP1|CREB-2|CREB2|HB16|TREB7-
Cytomap('ATF2')('DIRC3')

2q31.1

2q35

Type of geneprotein-codingncRNA
Descriptioncyclic AMP-dependent transcription factor ATF-2activating transcription factor 2 splice variant ATF2-var2cAMP response element-binding protein CRE-BP1cAMP responsive element binding protein 2, formerlycAMP-dependent transcription factor ATF-2cyclic A-
Modification date2020032220200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000264110, ENST00000345739, 
ENST00000392543, ENST00000392544, 
ENST00000409437, ENST00000409499, 
ENST00000409635, ENST00000409833, 
ENST00000413123, ENST00000426833, 
ENST00000487334, ENST00000538946, 
Fusion gene scores* DoF score12 X 11 X 9=11888 X 7 X 5=280
# samples 1310
** MAII scorelog2(13/1188*10)=-3.19195130777231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(10/280*10)=-1.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ATF2 [Title/Abstract] AND DIRC3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointATF2(176015788)-DIRC3(218192875), # 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
HgeneATF2

GO:0006357

regulation of transcription by RNA polymerase II

19861239

HgeneATF2

GO:0006970

response to osmotic stress

21098032

HgeneATF2

GO:0006974

cellular response to DNA damage stimulus

22304920

HgeneATF2

GO:0045944

positive regulation of transcription by RNA polymerase II

16300731|18671972

HgeneATF2

GO:0110024

positive regulation of cardiac muscle myoblast proliferation

22982025



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
ChimerDB4BRCATCGA-E2-A14Z-01AATF2chr2

176015788

-DIRC3chr2

218192875

-
ChimerDB4BRCATCGA-E2-A14ZATF2chr2

176015787

-DIRC3chr2

218192875

-


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Fusion Gene ORF analysis for ATF2-DIRC3

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-5UTRENST00000264110ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000264110ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000345739ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000345739ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000392543ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000392543ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000392544ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000392544ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409437ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409437ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409499ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409499ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409635ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409635ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409833ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000409833ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000413123ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000413123ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000426833ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000426833ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000487334ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000487334ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000538946ENST00000474063ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-5UTRENST00000538946ENST00000474063ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000264110ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000264110ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000345739ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000345739ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000392543ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000392543ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000392544ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000392544ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000409437ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000409437ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000409499ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000409499ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000409635ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000409635ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000409833ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000409833ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000413123ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000413123ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000426833ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000426833ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000487334ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000487334ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-
5UTR-intronENST00000538946ENST00000423123ATF2chr2

176015788

-DIRC3chr2

218192875

-
5UTR-intronENST00000538946ENST00000423123ATF2chr2

176015787

-DIRC3chr2

218192875

-

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 ATF2-DIRC3


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)


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Fusion Protein Features for ATF2-DIRC3


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/:176015788/:218192875)
- 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 ATF2-DIRC3


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 ATF2-DIRC3


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 ATF2-DIRC3


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 ATF2-DIRC3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneATF2C0006826Malignant Neoplasms1CTD_human
HgeneATF2C0027651Neoplasms1CTD_human
HgeneATF2C0086692Benign Neoplasm1CTD_human
HgeneATF2C0235874Disease Exacerbation1CTD_human
TgeneC0238463Papillary thyroid carcinoma1ORPHANET
TgeneC1333985Hereditary clear cell renal cell carcinoma1ORPHANET