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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:TRA2B-HRH4 (FusionGDB2 ID:92961)

Fusion Gene Summary for TRA2B-HRH4

check button Fusion gene summary
Fusion gene informationFusion gene name: TRA2B-HRH4
Fusion gene ID: 92961
HgeneTgene
Gene symbol

TRA2B

HRH4

Gene ID

6434

59340

Gene nametransformer 2 beta homologhistamine receptor H4
SynonymsHtra2-beta|PPP1R156|SFRS10|SRFS10|TRA2-BETA|TRAN2BAXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R
Cytomap

3q27.2

18q11.2

Type of geneprotein-codingprotein-coding
Descriptiontransformer-2 protein homolog betaTRA-2 betaprotein phosphatase 1, regulatory subunit 156splicing factor, arginine/serine-rich 10 (transformer 2 homolog, Drosophila)transformer-2 protein homolog Bhistamine H4 receptorG-protein coupled receptor 105SP9144pfi-013
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000453386, ENST00000382191, 
ENST00000471134, ENST00000342294, 
ENST00000256906, ENST00000426880, 
Fusion gene scores* DoF score14 X 9 X 8=10081 X 2 X 1=2
# samples 152
** MAII scorelog2(15/1008*10)=-2.74846123300404
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(2/2*10)=3.32192809488736
Context

PubMed: TRA2B [Title/Abstract] AND HRH4 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTRA2B(185655613)-HRH4(22048752), # samples:3
Anticipated loss of major functional domain due to fusion event.TRA2B-HRH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
TRA2B-HRH4 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
* 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
HgeneTRA2B

GO:0000381

regulation of alternative mRNA splicing, via spliceosome

12165565|12761049

HgeneTRA2B

GO:0000398

mRNA splicing, via spliceosome

9546399

HgeneTRA2B

GO:0048026

positive regulation of mRNA splicing, via spliceosome

15009664


check buttonFusion gene breakpoints across TRA2B (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 HRH4 (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
ChimerDB4HNSCTCGA-QK-A64Z-01ATRA2Bchr3

185655613

-HRH4chr18

22048752

+
ChimerDB4HNSCTCGA-QK-A64ZTRA2Bchr3

185655613

-HRH4chr18

22048752

+
ChimerDB4HNSCTCGA-QK-A64ZTRA2Bchr3

185655613

-HRH4chr18

22056711

+
ChimerDB4HNSCTCGA-QK-A64Z-01ATRA2Bchr3

185655613

-HRH4chr18

22048752

+


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Fusion Gene ORF analysis for TRA2B-HRH4

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
Frame-shiftENST00000453386ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22048752

+
5CDS-intronENST00000453386ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22048752

+
5UTR-3CDSENST00000382191ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22048752

+
5UTR-intronENST00000382191ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22048752

+
intron-3CDSENST00000471134ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22048752

+
intron-intronENST00000471134ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22048752

+
Frame-shiftENST00000342294ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22048752

+
5CDS-intronENST00000342294ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22048752

+
Frame-shiftENST00000453386ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22056711

+
5CDS-intronENST00000453386ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22056711

+
5UTR-3CDSENST00000382191ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22056711

+
5UTR-intronENST00000382191ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22056711

+
intron-3CDSENST00000471134ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22056711

+
intron-intronENST00000471134ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22056711

+
Frame-shiftENST00000342294ENST00000256906TRA2Bchr3

185655613

-HRH4chr18

22056711

+
5CDS-intronENST00000342294ENST00000426880TRA2Bchr3

185655613

-HRH4chr18

22056711

+

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 TRA2B-HRH4


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)
TRA2Bchr3185655612-HRH4chr1822048751+1.93E-131
TRA2Bchr3185655612-HRH4chr1822048751+1.93E-131
TRA2Bchr3185655612-HRH4chr1822056710+2.47E-111
TRA2Bchr3185655612-HRH4chr1822048751+1.93E-131
TRA2Bchr3185655612-HRH4chr1822048751+1.93E-131
TRA2Bchr3185655612-HRH4chr1822056710+2.47E-111

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 TRA2B-HRH4


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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 TRA2B-HRH4


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 TRA2B-HRH4


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 TRA2B-HRH4


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 TRA2B-HRH4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTRA2BC0038868Progressive supranuclear palsy1CTD_human
HgeneTRA2BC4551862Ophthalmoplegia, Progressive Supranuclear1CTD_human
HgeneTRA2BC4551863Supranuclear Palsy, Progressive, 11CTD_human
TgeneHRH4C0001418Adenocarcinoma1CTD_human
TgeneHRH4C0024623Malignant neoplasm of stomach1CTD_human
TgeneHRH4C0033774Pruritus1CTD_human
TgeneHRH4C0038356Stomach Neoplasms1CTD_human
TgeneHRH4C0205641Adenocarcinoma, Basal Cell1CTD_human
TgeneHRH4C0205642Adenocarcinoma, Oxyphilic1CTD_human
TgeneHRH4C0205643Carcinoma, Cribriform1CTD_human
TgeneHRH4C0205644Carcinoma, Granular Cell1CTD_human
TgeneHRH4C0205645Adenocarcinoma, Tubular1CTD_human
TgeneHRH4C1708349Hereditary Diffuse Gastric Cancer1CTD_human