FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:TRIM25-TBX4 (FusionGDB2 ID:93384)

Fusion Gene Summary for TRIM25-TBX4

check button Fusion gene summary
Fusion gene informationFusion gene name: TRIM25-TBX4
Fusion gene ID: 93384
HgeneTgene
Gene symbol

TRIM25

TBX4

Gene ID

7706

9496

Gene nametripartite motif containing 25T-box transcription factor 4
SynonymsEFP|RNF147|Z147|ZNF147ICPPS|PAPPAS|SPS
Cytomap

17q22

17q23.2

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin/ISG15 ligase TRIM25RING finger protein 147RING-type E3 ubiquitin transferaseRING-type E3 ubiquitin transferase TRIM25estrogen-responsive finger proteintripartite motif protein TRIM25tripartite motif-containing protein 25ubiquitin/ISG15T-box transcription factor TBX4T-box 4T-box protein 4
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000316881, ENST00000573108, 
ENST00000537230, 		ENST00000393853, 
ENST00000240335, ENST00000589449, 
Fusion gene scores* DoF score9 X 9 X 4=3243 X 4 X 3=36
# samples 103
** MAII scorelog2(10/324*10)=-1.6959938131099
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/36*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TRIM25 [Title/Abstract] AND TBX4 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTRIM25(54969379)-TBX4(59560261), # samples:2
Anticipated loss of major functional domain due to fusion event.TRIM25-TBX4 seems lost the major protein functional domain in Tgene partner, which is a transcription 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
HgeneTRIM25

GO:0043123

positive regulation of I-kappaB kinase/NF-kappaB signaling

23077300

HgeneTRIM25

GO:0043627

response to estrogen

22452784

HgeneTRIM25

GO:0045087

innate immune response

18248090

HgeneTRIM25

GO:0046596

regulation of viral entry into host cell

18248090


check buttonFusion gene breakpoints across TRIM25 (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 TBX4 (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
ChimerDB4BRCATCGA-AO-A0JM-01ATRIM25chr17

54969379

-TBX4chr17

59560261

+
ChimerDB4BRCATCGA-AO-A0JM-01ATRIM25chr17

54969379

-TBX4chr17

59560261

+
ChimerDB4BRCATCGA-AO-A0JM-01ATRIM25chr17

54972704

-TBX4chr17

59560258

+


Top

Fusion Gene ORF analysis for TRIM25-TBX4

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
intron-3CDSENST00000316881ENST00000393853TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3CDSENST00000316881ENST00000240335TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3UTRENST00000316881ENST00000589449TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3CDSENST00000573108ENST00000393853TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3CDSENST00000573108ENST00000240335TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3UTRENST00000573108ENST00000589449TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3CDSENST00000537230ENST00000393853TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3CDSENST00000537230ENST00000240335TRIM25chr17

54969379

-TBX4chr17

59560261

+
intron-3UTRENST00000537230ENST00000589449TRIM25chr17

54969379

-TBX4chr17

59560261

+
Frame-shiftENST00000316881ENST00000393853TRIM25chr17

54972704

-TBX4chr17

59560258

+
Frame-shiftENST00000316881ENST00000240335TRIM25chr17

54972704

-TBX4chr17

59560258

+
5CDS-3UTRENST00000316881ENST00000589449TRIM25chr17

54972704

-TBX4chr17

59560258

+
intron-3CDSENST00000573108ENST00000393853TRIM25chr17

54972704

-TBX4chr17

59560258

+
intron-3CDSENST00000573108ENST00000240335TRIM25chr17

54972704

-TBX4chr17

59560258

+
intron-3UTRENST00000573108ENST00000589449TRIM25chr17

54972704

-TBX4chr17

59560258

+
Frame-shiftENST00000537230ENST00000393853TRIM25chr17

54972704

-TBX4chr17

59560258

+
Frame-shiftENST00000537230ENST00000240335TRIM25chr17

54972704

-TBX4chr17

59560258

+
5CDS-3UTRENST00000537230ENST00000589449TRIM25chr17

54972704

-TBX4chr17

59560258

+

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

Top

Fusion Genomic Features for TRIM25-TBX4


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)
TRIM25chr1754972703-TBX4chr1759560260+8.81E-050.9999119
TRIM25chr1754972703-TBX4chr1759560260+8.81E-050.9999119

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 TRIM25-TBX4


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


Top

Fusion Gene Sequence for TRIM25-TBX4


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.

Top

Fusion Gene PPI Analysis for TRIM25-TBX4


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


Top

Related Drugs for TRIM25-TBX4


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for TRIM25-TBX4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneTBX4C0340543Familial primary pulmonary hypertension3GENOMICS_ENGLAND;ORPHANET
TgeneTBX4C1701939Familial pulmonary arterial hypertension2ORPHANET
TgeneTBX4C1840061SMALL PATELLA SYNDROME2CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneTBX4C0085292Stiff-Person Syndrome1GENOMICS_ENGLAND
TgeneTBX4C0152171Idiopathic pulmonary hypertension1GENOMICS_ENGLAND
TgeneTBX4C11509292-oxo-hept-3-ene-1,7-dioate hydratase activity1GENOMICS_ENGLAND
TgeneTBX4C1152136sucrose-phosphate synthase activity1GENOMICS_ENGLAND
TgeneTBX4C1868581Patella aplasia, coxa vara, tarsal synostosis1ORPHANET
TgeneTBX4C2973725Pulmonary arterial hypertension1GENOMICS_ENGLAND
TgeneTBX4C3150607CHROMOSOME 17q23.1-q23.2 DELETION SYNDROME1ORPHANET
TgeneTBX4C3150880CHROMOSOME 17q23.1-q23.2 DUPLICATION SYNDROME1ORPHANET
TgeneTBX4C3203102Idiopathic pulmonary arterial hypertension1GENOMICS_ENGLAND