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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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Fusion gene:BAI2-PTP4A2 (FusionGDB2 ID:HG576TG8073)

Fusion Gene Summary for BAI2-PTP4A2

check button Fusion gene summary
Fusion gene informationFusion gene name: BAI2-PTP4A2
Fusion gene ID: hg576tg8073
HgeneTgene
Gene symbol

BAI2

PTP4A2

Gene ID

576

8073

Gene nameadhesion G protein-coupled receptor B2protein tyrosine phosphatase 4A2
SynonymsBAI2HH13|HH7-2|HU-PP-1|OV-1|PRL-2|PRL2|PTP4A|PTPCAAX2|ptp-IV1a|ptp-IV1b
Cytomap('ADGRB2','BAI2')('PTP4A2','PTP4A2')

1p35.2

1p35.2

Type of geneprotein-codingprotein-coding
Descriptionadhesion G protein-coupled receptor B2brain-specific angiogenesis inhibitor 2protein tyrosine phosphatase type IVA 2PTP(CAAXII)phosphatase of regenerating liver 2protein tyrosine phosphatase IVAprotein tyrosine phosphatase IVA2protein tyrosine phosphatase type IVA, member 2protein-tyrosine phosphatase of regenerating liver 2
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000257070, ENST00000373655, 
ENST00000373658, ENST00000398538, 
ENST00000398542, ENST00000398547, 
ENST00000398556, ENST00000527361, 
ENST00000440175, ENST00000465256, 
Fusion gene scores* DoF score3 X 3 X 3=2713 X 8 X 8=832
# samples 513
** MAII scorelog2(5/27*10)=0.888968687611256
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(13/832*10)=-2.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: BAI2 [Title/Abstract] AND PTP4A2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointADGRB2(32221600)-PTP4A2(32385259), # samples:1
BAI2(32221600)-PTP4A2(32385259), # samples:1
BAI2(32229485)-PTP4A2(32385259), # 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
HgeneBAI2

GO:0007186

G protein-coupled receptor signaling pathway

28891236



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
ChimerDB4OVTCGA-24-1469-01AADGRB2chr1

32221600

-PTP4A2chr1

32385259

-
ChimerDB4OVTCGA-24-1469-01ABAI2chr1

32221600

-PTP4A2chr1

32385259

-
ChimerDB4OVTCGA-24-1469-01ABAI2chr1

32229485

-PTP4A2chr1

32385259

-


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Fusion Gene ORF analysis for BAI2-PTP4A2

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-5UTRENST00000257070ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000257070ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000257070ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373655ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373655ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373655ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373658ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373658ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000373658ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398538ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398538ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398538ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398542ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398542ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398542ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398547ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398547ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398547ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398556ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398556ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000398556ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000527361ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000527361ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-5UTRENST00000527361ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000257070ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000257070ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000257070ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373655ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373655ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373655ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373658ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373658ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000373658ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398538ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398538ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398538ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398542ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398542ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398542ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398547ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398547ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398547ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398556ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398556ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000398556ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000527361ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000527361ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5CDS-intronENST00000527361ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000257070ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000257070ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000257070ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373655ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373655ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373655ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373658ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373658ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000373658ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398542ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398542ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398542ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398547ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398547ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-5UTRENST00000398547ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000257070ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000257070ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000257070ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373655ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373655ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373655ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373658ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373658ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000373658ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398542ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398542ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398542ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398547ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398547ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
5UTR-intronENST00000398547ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398538ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398538ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398538ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398556ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398556ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000398556ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000440175ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000344035BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000356536BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000526960BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-5UTRENST00000465256ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000527361ENST00000344035BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000527361ENST00000356536BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-5UTRENST00000527361ENST00000526960BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398538ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398538ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398538ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398556ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398556ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000398556ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000440175ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000457805BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000470404BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000602725BAI2chr1

32221600

-PTP4A2chr1

32385259

-
intron-intronENST00000465256ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000527361ENST00000457805BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000527361ENST00000470404BAI2chr1

32229485

-PTP4A2chr1

32385259

-
intron-intronENST00000527361ENST00000602725BAI2chr1

32229485

-PTP4A2chr1

32385259

-

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 BAI2-PTP4A2


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 BAI2-PTP4A2


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/:32221600/:32385259)
- 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 BAI2-PTP4A2


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 BAI2-PTP4A2


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 BAI2-PTP4A2


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 BAI2-PTP4A2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC1135196Heart Failure, Diastolic1CTD_human