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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:GTPBP4-KLK3 (FusionGDB2 ID:35315)

Fusion Gene Summary for GTPBP4-KLK3

check button Fusion gene summary
Fusion gene informationFusion gene name: GTPBP4-KLK3
Fusion gene ID: 35315
HgeneTgene
Gene symbol

GTPBP4

KLK3

Gene ID

23560

3818

Gene nameGTP binding protein 4kallikrein B1
SynonymsCRFG|NGB|NOG1KLK3|PKK|PKKD|PPK
Cytomap

10p15.3

4q35.2

Type of geneprotein-codingprotein-coding
Descriptionnucleolar GTP-binding protein 1G protein-binding protein CRFGGTP-binding protein NGBchronic renal failure gene proteinplasma kallikreinkallikrein B, plasma (Fletcher factor) 1kininogeninplasma prekallikrein
Modification date2020031320200320
UniProtAcc

Q9BZE4

P07288

Ensembl transtripts involved in fusion geneENST00000360803, ENST00000491635, 
ENST00000538293, ENST00000545048, 
ENST00000326003, ENST00000360617, 
ENST00000593997, ENST00000595952, 
ENST00000597483, 
Fusion gene scores* DoF score6 X 6 X 4=14430 X 32 X 3=2880
# samples 637
** MAII scorelog2(6/144*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(37/2880*10)=-2.96047163581336
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GTPBP4 [Title/Abstract] AND KLK3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGTPBP4(1063879)-KLK3(51363227), # 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
HgeneGTPBP4

GO:0000079

regulation of cyclin-dependent protein serine/threonine kinase activity

17210637

HgeneGTPBP4

GO:0022408

negative regulation of cell-cell adhesion

17210637

HgeneGTPBP4

GO:0030336

negative regulation of cell migration

17210637

HgeneGTPBP4

GO:0031397

negative regulation of protein ubiquitination

17210637

HgeneGTPBP4

GO:0050821

protein stabilization

17210637

TgeneKLK3

GO:0031639

plasminogen activation

89876

TgeneKLK3

GO:0051919

positive regulation of fibrinolysis

89876


check buttonFusion gene breakpoints across GTPBP4 (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 KLK3 (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
ChimerDB4PRADTCGA-HC-7748GTPBP4chr10

1063879

+KLK3chr19

51363227

+
ChimerDB4PRADTCGA-HC-7750GTPBP4chr10

1063879

+KLK3chr19

51363227

+


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Fusion Gene ORF analysis for GTPBP4-KLK3

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-3CDSENST00000360803ENST00000326003GTPBP4chr10

1063879

+KLK3chr19

51363227

+
3UTR-3UTRENST00000360803ENST00000360617GTPBP4chr10

1063879

+KLK3chr19

51363227

+
3UTR-intronENST00000360803ENST00000593997GTPBP4chr10

1063879

+KLK3chr19

51363227

+
3UTR-intronENST00000360803ENST00000595952GTPBP4chr10

1063879

+KLK3chr19

51363227

+
3UTR-intronENST00000360803ENST00000597483GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3CDSENST00000491635ENST00000326003GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3CDSENST00000538293ENST00000326003GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3CDSENST00000545048ENST00000326003GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3UTRENST00000491635ENST00000360617GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3UTRENST00000538293ENST00000360617GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-3UTRENST00000545048ENST00000360617GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000491635ENST00000593997GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000491635ENST00000595952GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000491635ENST00000597483GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000538293ENST00000593997GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000538293ENST00000595952GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000538293ENST00000597483GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000545048ENST00000593997GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000545048ENST00000595952GTPBP4chr10

1063879

+KLK3chr19

51363227

+
intron-intronENST00000545048ENST00000597483GTPBP4chr10

1063879

+KLK3chr19

51363227

+

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 GTPBP4-KLK3


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.

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Fusion Protein Features for GTPBP4-KLK3


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/:1063879/:51363227)
- 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
GTPBP4

Q9BZE4

KLK3

P07288

FUNCTION: Involved in the biogenesis of the 60S ribosomal subunit. {ECO:0000250}.FUNCTION: Hydrolyzes semenogelin-1 thus leading to the liquefaction of the seminal coagulum.

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 GTPBP4-KLK3


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 GTPBP4-KLK3


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 GTPBP4-KLK3


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 GTPBP4-KLK3


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