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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-ING1 (FusionGDB2 ID:92964)

Fusion Gene Summary for TRA2B-ING1

check button Fusion gene summary
Fusion gene informationFusion gene name: TRA2B-ING1
Fusion gene ID: 92964
HgeneTgene
Gene symbol

TRA2B

ING1

Gene ID

6434

3621

Gene nametransformer 2 beta homologinhibitor of growth family member 1
SynonymsHtra2-beta|PPP1R156|SFRS10|SRFS10|TRA2-BETA|TRAN2Bp24ING1c|p33|p33ING1|p33ING1b|p47|p47ING1a
Cytomap

3q27.2

13q34

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 Binhibitor of growth protein 1growth inhibitor ING1growth inhibitory protein ING1tumor suppressor ING1
Modification date2020031320200313
UniProtAcc.

Q9UK53

Ensembl transtripts involved in fusion geneENST00000453386, ENST00000382191, 
ENST00000471134, ENST00000342294, 
ENST00000338450, ENST00000333219, 
ENST00000375775, ENST00000375774, 
ENST00000464141, 
Fusion gene scores* DoF score14 X 9 X 8=10087 X 5 X 4=140
# samples 157
** MAII scorelog2(15/1008*10)=-2.74846123300404
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/140*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TRA2B [Title/Abstract] AND ING1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTRA2B(185643251)-ING1(111371575), # samples:1
Anticipated loss of major functional domain due to fusion event.TRA2B-ING1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
TRA2B-ING1 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor due to the frame-shifted ORF.
TRA2B-ING1 seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor 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 ING1 (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
ChimerDB4BLCATCGA-GD-A3OSTRA2Bchr3

185643251

-ING1chr13

111371575

+


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Fusion Gene ORF analysis for TRA2B-ING1

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
In-frameENST00000453386ENST00000338450TRA2Bchr3

185643251

-ING1chr13

111371575

+
Frame-shiftENST00000453386ENST00000333219TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-5UTRENST00000453386ENST00000375775TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-5UTRENST00000453386ENST00000375774TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-3UTRENST00000453386ENST00000464141TRA2Bchr3

185643251

-ING1chr13

111371575

+
In-frameENST00000382191ENST00000338450TRA2Bchr3

185643251

-ING1chr13

111371575

+
Frame-shiftENST00000382191ENST00000333219TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-5UTRENST00000382191ENST00000375775TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-5UTRENST00000382191ENST00000375774TRA2Bchr3

185643251

-ING1chr13

111371575

+
5CDS-3UTRENST00000382191ENST00000464141TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3CDSENST00000471134ENST00000338450TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3CDSENST00000471134ENST00000333219TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-5UTRENST00000471134ENST00000375775TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-5UTRENST00000471134ENST00000375774TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3UTRENST00000471134ENST00000464141TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3CDSENST00000342294ENST00000338450TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3CDSENST00000342294ENST00000333219TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-5UTRENST00000342294ENST00000375775TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-5UTRENST00000342294ENST00000375774TRA2Bchr3

185643251

-ING1chr13

111371575

+
intron-3UTRENST00000342294ENST00000464141TRA2Bchr3

185643251

-ING1chr13

111371575

+

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)
ENST00000453386TRA2Bchr3185643251-ENST00000338450ING1chr13111371575+15566096141312232
ENST00000382191TRA2Bchr3185643251-ENST00000338450ING1chr13111371575+13894424471145232

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
ENST00000453386ENST00000338450TRA2Bchr3185643251-ING1chr13111371575+0.0131218380.9868781
ENST00000382191ENST00000338450TRA2Bchr3185643251-ING1chr13111371575+0.0177002660.98229975

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Fusion Genomic Features for TRA2B-ING1


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)
TRA2Bchr3185643251-ING1chr13111371575+2.02E-121
TRA2Bchr3185643251-ING1chr13111371575+2.02E-121

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-ING1


check button Go to

FGviewer for the breakpoints of chr3:185643251-chr13:111371575

.
- 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
.ING1

Q9UK53

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: Cooperates with p53/TP53 in the negative regulatory pathway of cell growth by modulating p53-dependent transcriptional activation. Implicated as a tumor suppressor gene. {ECO:0000269|PubMed:9440695}.

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
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000453386-3931_113111.0289.0Compositional biasNote=Arg/Ser-rich (RS1 domain)
TgeneING1chr3:185643251chr13:111371575ENST0000033321902405_42245.333333333333336280.0RegionPBR
TgeneING1chr3:185643251chr13:111371575ENST0000033845002405_4221.3333333333333333236.0RegionPBR
TgeneING1chr3:185643251chr13:111371575ENST0000037577402405_422188.33333333333334423.0RegionPBR
TgeneING1chr3:185643251chr13:111371575ENST0000037577502405_4220211.0RegionPBR
TgeneING1chr3:185643251chr13:111371575ENST0000033321902353_40245.333333333333336280.0Zinc fingerPHD-type
TgeneING1chr3:185643251chr13:111371575ENST0000033845002353_4021.3333333333333333236.0Zinc fingerPHD-type
TgeneING1chr3:185643251chr13:111371575ENST0000037577402353_402188.33333333333334423.0Zinc fingerPHD-type
TgeneING1chr3:185643251chr13:111371575ENST0000037577502353_4020211.0Zinc fingerPHD-type

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000342294-12231_287039.0Compositional biasNote=Arg/Ser-rich (RS2 domain)
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000342294-1231_113039.0Compositional biasNote=Arg/Ser-rich (RS1 domain)
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000382191-28231_28711.0189.0Compositional biasNote=Arg/Ser-rich (RS2 domain)
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000382191-2831_11311.0189.0Compositional biasNote=Arg/Ser-rich (RS1 domain)
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000453386-39231_287111.0289.0Compositional biasNote=Arg/Ser-rich (RS2 domain)
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000342294-12118_196039.0DomainRRM
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000382191-28118_19611.0189.0DomainRRM
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000453386-39118_196111.0289.0DomainRRM
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000342294-12193_230039.0RegionNote=Linker
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000382191-28193_23011.0189.0RegionNote=Linker
HgeneTRA2Bchr3:185643251chr13:111371575ENST00000453386-39193_230111.0289.0RegionNote=Linker


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Fusion Gene Sequence for TRA2B-ING1


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.
>In-frame_ENST00000453386_ENST00000338450_TCGA-GD-A3OS_TRA2B_chr3_185643251_-_ING1_chr13_111371575_length(transcript)=1556nt_BP=609nt
GTGCGGGACGCGCTGCAGCTGGAGAGGAAAGGCAGAGCGAGGAGGGGCGAGGCCAAGAAAGCGCGCGTTTCTGGGAGGGGAGGAGCCTGG
CTAAGGAGCGCCGCGTCACATCCGGTAGAGTTAGAGCCCGTGCGGAGGCGGTGCGGAGCATTTCGGCTCTGAGCGGCTGGGCGACCGGCG
CGTCGTGCGGGGCTGCGGCGGAGCCTCCTTAAGGAAGGTGCAAGAGGTTGGCAGCTTCGATTGAAGCACATCGACCGGCGACAGCAGCCA
GGAGTCATGAGCGACAGCGGCGAGCAGAACTACGGCGAGCGGGAATCCCGTTCTGCTTCCAGAAGTGGAAGTGCTCACGGATCGGGGAAA
TCTGCAAGGCATACCCCTGCAAGGTCTCGCTCCAAGGAAGATTCCAGGCGTTCCAGATCAAAGTCCAGGTCCCGATCTGAATCTAGGTCT
AGATCCAGAAGAAGCTCCCGAAGGCATTATACCCGGTCACGGTCTCGCTCCCGCTCCCATAGACGATCACGTAGCAGGTCTTACAGTCGA
GATTATCGTAGACGGCACAGCCACAGCCATTCTCCCATGTCTACTCGCAGGCGTCATGTTGGGAATCGGAGATCCTGAAGGAGCTAGACG
AGTGCTACGAGCGCTTCAGTCGCGAGACAGACGGGGCGCAGAAGCGGCGGATGCTGCACTGTGTGCAGCGCGCGCTGATCCGCAGCCAGG
AGCTGGGCGACGAGAAGATCCAGATCGTGAGCCAGATGGTGGAGCTGGTGGAGAACCGCACGCGGCAGGTGGACAGCCACGTGGAGCTGT
TCGAGGCGCAGCAGGAGCTGGGCGACACAGCGGGCAACAGCGGCAAGGCTGGCGCGGACAGGCCCAAAGGCGAGGCGGCAGCGCAGGCTG
ACAAGCCCAACAGCAAGCGCTCACGGCGGCAGCGCAACAACGAGAACCGTGAGAACGCGTCCAGCAACCACGACCACGACGACGGCGCCT
CGGGCACACCCAAGGAGAAGAAGGCCAAGACCTCCAAGAAGAAGAAGCGCTCCAAGGCCAAGGCGGAGCGAGAGGCGTCCCCTGCCGACC
TCCCCATCGACCCCAACGAACCCACGTACTGTCTGTGCAACCAGGTCTCCTATGGGGAGATGATCGGCTGCGACAACGACGAGTGCCCCA
TCGAGTGGTTCCACTTCTCGTGCGTGGGGCTCAATCATAAACCCAAGGGCAAGTGGTACTGTCCCAAGTGCCGGGGGGAGAACGAGAAGA
CCATGGACAAAGCCCTGGAGAAATCCAAAAAAGAGAGGGCTTACAACAGGTAGTTTGTGGACAGGCGCCTGGTGTGAGGAGGACAAAATA
AACCGTGTATTTATTACATTGCTGCCTTTGTTGAGGTGCAAGGAGTGTAAAATGTATATTTTTAAAGAATGTTAGTAAAGGAACCATTCC
TTTCATAGGGATGGCAGTGATTCTGTTTGCCTTTTGTTTTCATTGGTACACGTGTAACAAGAAAGTGGTCTGTGGATCAGCATTTTAGAA

>In-frame_ENST00000453386_ENST00000338450_TCGA-GD-A3OS_TRA2B_chr3_185643251_-_ING1_chr13_111371575_length(amino acids)=232AA_start in transcript=614_stop in transcript=1312
MKELDECYERFSRETDGAQKRRMLHCVQRALIRSQELGDEKIQIVSQMVELVENRTRQVDSHVELFEAQQELGDTAGNSGKAGADRPKGE
AAAQADKPNSKRSRRQRNNENRENASSNHDHDDGASGTPKEKKAKTSKKKKRSKAKAEREASPADLPIDPNEPTYCLCNQVSYGEMIGCD

--------------------------------------------------------------
>In-frame_ENST00000382191_ENST00000338450_TCGA-GD-A3OS_TRA2B_chr3_185643251_-_ING1_chr13_111371575_length(transcript)=1389nt_BP=442nt
AGAGCGAGGAGGGGCGAGGCCAAGAAAGCGCGCGTTTCTGGGAGGGGAGGAGCCTGGCTAAGGAGCGCCGCGTCACATCCGGTAGAGTTA
GAGCCCGTGCGGAGGCGGTGCGGAGCATTTCGGCTCTGAGCGGCTGGGCGACCGGCGCGTCGTGCGGGGCTGCGGCGGAGCCTCCTTAAG
GAAGGTGCAAGAGGTTGGCAGCTTCGATTGAAGCACATCGACCGGCGACAGCAGCCAGGAGTCATGAGCGACAGCGGCGAGCAGAACTAC
GGCGAGCGGGTCTAGATCCAGAAGAAGCTCCCGAAGGCATTATACCCGGTCACGGTCTCGCTCCCGCTCCCATAGACGATCACGTAGCAG
GTCTTACAGTCGAGATTATCGTAGACGGCACAGCCACAGCCATTCTCCCATGTCTACTCGCAGGCGTCATGTTGGGAATCGGAGATCCTG
AAGGAGCTAGACGAGTGCTACGAGCGCTTCAGTCGCGAGACAGACGGGGCGCAGAAGCGGCGGATGCTGCACTGTGTGCAGCGCGCGCTG
ATCCGCAGCCAGGAGCTGGGCGACGAGAAGATCCAGATCGTGAGCCAGATGGTGGAGCTGGTGGAGAACCGCACGCGGCAGGTGGACAGC
CACGTGGAGCTGTTCGAGGCGCAGCAGGAGCTGGGCGACACAGCGGGCAACAGCGGCAAGGCTGGCGCGGACAGGCCCAAAGGCGAGGCG
GCAGCGCAGGCTGACAAGCCCAACAGCAAGCGCTCACGGCGGCAGCGCAACAACGAGAACCGTGAGAACGCGTCCAGCAACCACGACCAC
GACGACGGCGCCTCGGGCACACCCAAGGAGAAGAAGGCCAAGACCTCCAAGAAGAAGAAGCGCTCCAAGGCCAAGGCGGAGCGAGAGGCG
TCCCCTGCCGACCTCCCCATCGACCCCAACGAACCCACGTACTGTCTGTGCAACCAGGTCTCCTATGGGGAGATGATCGGCTGCGACAAC
GACGAGTGCCCCATCGAGTGGTTCCACTTCTCGTGCGTGGGGCTCAATCATAAACCCAAGGGCAAGTGGTACTGTCCCAAGTGCCGGGGG
GAGAACGAGAAGACCATGGACAAAGCCCTGGAGAAATCCAAAAAAGAGAGGGCTTACAACAGGTAGTTTGTGGACAGGCGCCTGGTGTGA
GGAGGACAAAATAAACCGTGTATTTATTACATTGCTGCCTTTGTTGAGGTGCAAGGAGTGTAAAATGTATATTTTTAAAGAATGTTAGTA
AAGGAACCATTCCTTTCATAGGGATGGCAGTGATTCTGTTTGCCTTTTGTTTTCATTGGTACACGTGTAACAAGAAAGTGGTCTGTGGAT

>In-frame_ENST00000382191_ENST00000338450_TCGA-GD-A3OS_TRA2B_chr3_185643251_-_ING1_chr13_111371575_length(amino acids)=232AA_start in transcript=447_stop in transcript=1145
MKELDECYERFSRETDGAQKRRMLHCVQRALIRSQELGDEKIQIVSQMVELVENRTRQVDSHVELFEAQQELGDTAGNSGKAGADRPKGE
AAAQADKPNSKRSRRQRNNENRENASSNHDHDDGASGTPKEKKAKTSKKKKRSKAKAEREASPADLPIDPNEPTYCLCNQVSYGEMIGCD

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Fusion Gene PPI Analysis for TRA2B-ING1


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-ING1


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-ING1


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
TgeneING1C0011616Contact Dermatitis1CTD_human
TgeneING1C0024623Malignant neoplasm of stomach1CTD_human
TgeneING1C0038356Stomach Neoplasms1CTD_human
TgeneING1C0162351Contact hypersensitivity1CTD_human
TgeneING1C0235874Disease Exacerbation1CTD_human
TgeneING1C0280302Squamous cell carcinoma of lip1ORPHANET
TgeneING1C0280313Squamous cell carcinoma of oropharynx1ORPHANET
TgeneING1C0280321Squamous cell carcinoma of the hypopharynx1ORPHANET
TgeneING1C0280324Laryngeal Squamous Cell Carcinoma1ORPHANET
TgeneING1C0585362Squamous cell carcinoma of mouth1ORPHANET
TgeneING1C1168401Squamous cell carcinoma of the head and neck1CGI;CTD_human;UNIPROT
TgeneING1C1708349Hereditary Diffuse Gastric Cancer1CTD_human