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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:PLEKHG3-TCF4 (FusionGDB2 ID:66268)

Fusion Gene Summary for PLEKHG3-TCF4

check button Fusion gene summary
Fusion gene informationFusion gene name: PLEKHG3-TCF4
Fusion gene ID: 66268
HgeneTgene
Gene symbol

PLEKHG3

TCF4

Gene ID

26030

6934

Gene namepleckstrin homology and RhoGEF domain containing G3transcription factor 7 like 2
SynonymsARHGEF43|KIAA0599TCF-4|TCF4
Cytomap

14q23.3

10q25.2-q25.3

Type of geneprotein-codingprotein-coding
Descriptionpleckstrin homology domain-containing family G member 3PH domain-containing family G member 3pleckstrin homology domain containing, family G (with RhoGef domain) member 3pleckstrin homology domain containing, family G, member 3transcription factor 7-like 2HMG box transcription factor 4T-cell factor 4T-cell-specific transcription factor 4hTCF-4transcription factor 7-like 2 (T-cell specific, HMG-box)
Modification date2020031320200315
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000247226, ENST00000394691, 
ENST00000471182, ENST00000484731, 
ENST00000492928, 		ENST00000354452, 
ENST00000356073, ENST00000398339, 
ENST00000457482, ENST00000537578, 
ENST00000537856, ENST00000540999, 
ENST00000543082, ENST00000544241, 
ENST00000561831, ENST00000561992, 
ENST00000563760, ENST00000564228, 
ENST00000564403, ENST00000564999, 
ENST00000565018, ENST00000566279, 
ENST00000566286, ENST00000567880, 
ENST00000568673, ENST00000568740, 
ENST00000570177, ENST00000570287, 
Fusion gene scores* DoF score2 X 2 X 2=811 X 10 X 4=440
# samples 211
** MAII scorelog2(2/8*10)=1.32192809488736log2(11/440*10)=-2
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PLEKHG3 [Title/Abstract] AND TCF4 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint
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
TgeneTCF4

GO:0000122

negative regulation of transcription by RNA polymerase II

12799378

TgeneTCF4

GO:0006357

regulation of transcription by RNA polymerase II

9727977

TgeneTCF4

GO:0032092

positive regulation of protein binding

12799378

TgeneTCF4

GO:0032350

regulation of hormone metabolic process

15525634

TgeneTCF4

GO:0042593

glucose homeostasis

15525634

TgeneTCF4

GO:0043433

negative regulation of DNA-binding transcription factor activity

12799378

TgeneTCF4

GO:0045444

fat cell differentiation

10937998

TgeneTCF4

GO:0045892

negative regulation of transcription, DNA-templated

12799378|15525634

TgeneTCF4

GO:0045944

positive regulation of transcription by RNA polymerase II

9065401|19168596

TgeneTCF4

GO:0048625

myoblast fate commitment

10937998


check buttonFusion gene breakpoints across PLEKHG3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across TCF4 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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
ChimerKB4..PLEKHG3chr14

65171192

+TCF4chr18

65171192

-


Top

Fusion Gene ORF analysis for PLEKHG3-TCF4

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-intronENST00000247226ENST00000354452PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000356073PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000398339PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000457482PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000537578PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000537856PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000540999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000543082PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000544241PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000561831PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000561992PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000563760PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000564228PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000564403PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000564999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000565018PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000566279PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000566286PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000567880PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000568673PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000568740PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000570177PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
5UTR-intronENST00000247226ENST00000570287PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000354452PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000356073PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000398339PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000457482PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000537578PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000537856PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000540999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000543082PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000544241PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000561831PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000561992PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000563760PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000564228PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000564403PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000564999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000565018PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000566279PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000566286PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000567880PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000568673PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000568740PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000570177PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000394691ENST00000570287PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000354452PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000356073PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000398339PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000457482PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000537578PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000537856PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000540999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000543082PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000544241PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000561831PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000561992PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000563760PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000564228PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000564403PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000564999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000565018PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000566279PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000566286PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000567880PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000568673PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000568740PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000570177PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000471182ENST00000570287PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000354452PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000356073PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000398339PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000457482PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000537578PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000537856PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000540999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000543082PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000544241PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000561831PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000561992PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000563760PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000564228PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000564403PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000564999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000565018PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000566279PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000566286PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000567880PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000568673PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000568740PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000570177PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000484731ENST00000570287PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000354452PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000356073PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000398339PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000457482PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000537578PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000537856PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000540999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000543082PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000544241PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000561831PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000561992PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000563760PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000564228PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000564403PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000564999PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000565018PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000566279PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000566286PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000567880PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000568673PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000568740PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000570177PLEKHG3chr14

65171192

+TCF4chr18

65171192

-
intron-intronENST00000492928ENST00000570287PLEKHG3chr14

65171192

+TCF4chr18

65171192

-

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 PLEKHG3-TCF4


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)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

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.

Top

Fusion Protein Features for PLEKHG3-TCF4


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/:/:)
- 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 PLEKHG3-TCF4


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 PLEKHG3-TCF4


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 PLEKHG3-TCF4


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 PLEKHG3-TCF4


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