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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:ABI3BP-TFG (FusionGDB2 ID:HG25890TG10342)

Fusion Gene Summary for ABI3BP-TFG

check button Fusion gene summary
Fusion gene informationFusion gene name: ABI3BP-TFG
Fusion gene ID: hg25890tg10342
HgeneTgene
Gene symbol

ABI3BP

TFG

Gene ID

25890

10342

Gene nameABI family member 3 binding proteintrafficking from ER to golgi regulator
SynonymsNESHBP|TARSHHMSNP|SPG57|TF6|TRKT3
Cytomap('ABI3BP')('TFG')

3q12.2

3q12.2

Type of geneprotein-codingprotein-coding
Descriptiontarget of Nesh-SH3ABI family, member 3 (NESH) binding proteinABI gene family member 3-binding proteinABI gene family, member 3 (NESH) binding proteinnesh-binding proteinprotein TFGTRK-fusedTRK-fused gene proteinTRKT3 oncogene
Modification date2020031320200313
UniProtAcc.

Q92734

Ensembl transtripts involved in fusion geneENST00000284322, ENST00000383691, 
ENST00000471714, ENST00000495063, 
ENST00000532144, 
Fusion gene scores* DoF score4 X 4 X 4=648 X 7 X 5=280
# samples 49
** MAII scorelog2(4/64*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(9/280*10)=-1.63742992061529
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ABI3BP [Title/Abstract] AND TFG [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointABI3BP(100470395)-TFG(100463676), # samples:1
Anticipated loss of major functional domain due to fusion event.ABI3BP-TFG seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
ABI3BP-TFG seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
ABI3BP-TFG seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
ABI3BP-TFG seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
ABI3BP-TFG seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
ABI3BP-TFG seems lost the major protein functional domain in Tgene partner, which is a essential gene 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

check buttonFusion gene breakpoints across ABI3BP (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure
check buttonFusion gene breakpoints across TFG (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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-29-1695ABI3BPchr3

100470395

-TFGchr3

100463676

+


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Fusion Gene ORF analysis for ABI3BP-TFG

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-3UTRENST00000284322ENST00000481203ABI3BPchr3

100470395

-TFGchr3

100463676

+
5CDS-3UTRENST00000383691ENST00000481203ABI3BPchr3

100470395

-TFGchr3

100463676

+
5CDS-3UTRENST00000471714ENST00000481203ABI3BPchr3

100470395

-TFGchr3

100463676

+
Frame-shiftENST00000383691ENST00000240851ABI3BPchr3

100470395

-TFGchr3

100463676

+
Frame-shiftENST00000383691ENST00000418917ABI3BPchr3

100470395

-TFGchr3

100463676

+
Frame-shiftENST00000383691ENST00000476228ABI3BPchr3

100470395

-TFGchr3

100463676

+
Frame-shiftENST00000383691ENST00000490574ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000284322ENST00000240851ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000284322ENST00000418917ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000284322ENST00000476228ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000284322ENST00000490574ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000471714ENST00000240851ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000471714ENST00000418917ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000471714ENST00000476228ABI3BPchr3

100470395

-TFGchr3

100463676

+
In-frameENST00000471714ENST00000490574ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000495063ENST00000240851ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000495063ENST00000418917ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000495063ENST00000476228ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000495063ENST00000490574ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000532144ENST00000240851ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000532144ENST00000418917ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000532144ENST00000476228ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3CDSENST00000532144ENST00000490574ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3UTRENST00000495063ENST00000481203ABI3BPchr3

100470395

-TFGchr3

100463676

+
intron-3UTRENST00000532144ENST00000481203ABI3BPchr3

100470395

-TFGchr3

100463676

+

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 ABI3BP-TFG


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)
ABI3BPchr3100470395-TFGchr3100463676+3.20E-050.99996805
ABI3BPchr3100470395-TFGchr3100463676+3.20E-050.99996805

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for ABI3BP-TFG


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/chr3:100470395/chr3:100463676)
- 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
.TFG

Q92734

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: Plays a role in the normal dynamic function of the endoplasmic reticulum (ER) and its associated microtubules (PubMed:23479643, PubMed:27813252). Required for secretory cargo traffic from the endoplasmic reticulum to the Golgi apparatus (PubMed:21478858). {ECO:0000269|PubMed:21478858, ECO:0000269|PubMed:23479643, ECO:0000269|PubMed:27813252}.

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
HgeneABI3BPchr3:100470395chr3:100463676ENST00000284322-3435419_75610371076.0Compositional biasNote=Pro-rich
HgeneABI3BPchr3:100470395chr3:100463676ENST00000284322-3435123_22110371076.0DomainFibronectin type-III 1
HgeneABI3BPchr3:100470395chr3:100463676ENST00000284322-3435840_93310371076.0DomainFibronectin type-III 2

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneTFGchr3:100470395chr3:100463676ENST000002408515897_124240401.0Coiled coilOntology_term=ECO:0000255
TgeneTFGchr3:100470395chr3:100463676ENST000004189175897_124236397.0Coiled coilOntology_term=ECO:0000255
TgeneTFGchr3:100470395chr3:100463676ENST000004762285897_124236397.0Coiled coilOntology_term=ECO:0000255
TgeneTFGchr3:100470395chr3:100463676ENST000004905745897_124240401.0Coiled coilOntology_term=ECO:0000255
TgeneTFGchr3:100470395chr3:100463676ENST000002408515810_91240401.0DomainPB1
TgeneTFGchr3:100470395chr3:100463676ENST000004189175810_91236397.0DomainPB1
TgeneTFGchr3:100470395chr3:100463676ENST000004762285810_91236397.0DomainPB1
TgeneTFGchr3:100470395chr3:100463676ENST000004905745810_91240401.0DomainPB1


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Fusion Gene Sequence for ABI3BP-TFG


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 ABI3BP-TFG


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 ABI3BP-TFG


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 ABI3BP-TFG


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneABI3BPC0014175Endometriosis1CTD_human
HgeneABI3BPC0041696Unipolar Depression1PSYGENET
HgeneABI3BPC0269102Endometrioma1CTD_human
HgeneABI3BPC1269683Major Depressive Disorder1PSYGENET
TgeneC3714897SPASTIC PARAPLEGIA 57, AUTOSOMAL RECESSIVE5CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC1858338Neuropathy, hereditary motor and sensory, Okinawa type4CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC0238463Papillary thyroid carcinoma2ORPHANET
TgeneC0442874Neuropathy1GENOMICS_ENGLAND
TgeneC1275278Extraskeletal Myxoid Chondrosarcoma1GENOMICS_ENGLAND;ORPHANET
TgeneC3714756Intellectual Disability1GENOMICS_ENGLAND