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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:CLIC4-EIF4G3 (FusionGDB2 ID:HG25932TG8672)

Fusion Gene Summary for CLIC4-EIF4G3

check button Fusion gene summary
Fusion gene informationFusion gene name: CLIC4-EIF4G3
Fusion gene ID: hg25932tg8672
HgeneTgene
Gene symbol

CLIC4

EIF4G3

Gene ID

25932

8672

Gene namechloride intracellular channel 4eukaryotic translation initiation factor 4 gamma 3
SynonymsCLIC4L|H1|MTCLIC|huH1|p64H1eIF-4G 3|eIF4G 3|eIF4GII
Cytomap('CLIC4')('EIF4G3')

1p36.11

1p36.12

Type of geneprotein-codingprotein-coding
Descriptionchloride intracellular channel protein 4chloride intracellular channel 4 likeepididymis secretory sperm binding proteinintracellular chloride ion channel protein p64H1eukaryotic translation initiation factor 4 gamma 3eIF-4-gamma 3eIF-4-gamma II
Modification date2020031320200313
UniProtAcc

Q9Y696

O43432

Ensembl transtripts involved in fusion geneENST00000497755, ENST00000374379, 
Fusion gene scores* DoF score14 X 6 X 9=75625 X 20 X 9=4500
# samples 1730
** MAII scorelog2(17/756*10)=-2.15285148808337
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(30/4500*10)=-3.90689059560852
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CLIC4 [Title/Abstract] AND EIF4G3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCLIC4(25072116)-EIF4G3(21415706), # samples:1
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
HgeneCLIC4

GO:0030336

negative regulation of cell migration

12163372



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
ChimerDB4STADTCGA-IN-7808-01ACLIC4chr1

25072116

+EIF4G3chr1

21415706

-


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Fusion Gene ORF analysis for CLIC4-EIF4G3

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-5UTRENST00000497755ENST00000356916CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-5UTRENST00000497755ENST00000374927CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-5UTRENST00000497755ENST00000400422CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-5UTRENST00000497755ENST00000602326CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000264211CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000374933CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000374935CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000374937CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000536266CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000537738CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
3UTR-intronENST00000497755ENST00000544689CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-5UTRENST00000374379ENST00000356916CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-5UTRENST00000374379ENST00000374927CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-5UTRENST00000374379ENST00000400422CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-5UTRENST00000374379ENST00000602326CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000264211CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000374933CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000374935CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000374937CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000536266CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000537738CLIC4chr1

25072116

+EIF4G3chr1

21415706

-
5CDS-intronENST00000374379ENST00000544689CLIC4chr1

25072116

+EIF4G3chr1

21415706

-

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 CLIC4-EIF4G3


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)


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Fusion Protein Features for CLIC4-EIF4G3


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/:25072116/:21415706)
- 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
CLIC4

Q9Y696

EIF4G3

O43432

FUNCTION: Can insert into membranes and form poorly selective ion channels that may also transport chloride ions. Channel activity depends on the pH. Membrane insertion seems to be redox-regulated and may occur only under oxydizing conditions. Promotes cell-surface expression of HRH3. Has alternate cellular functions like a potential role in angiogenesis or in maintaining apical-basolateral membrane polarity during mitosis and cytokinesis. Could also promote endothelial cell proliferation and regulate endothelial morphogenesis (tubulogenesis). {ECO:0000269|PubMed:12163372, ECO:0000269|PubMed:14569596, ECO:0000269|PubMed:16176272, ECO:0000269|PubMed:16239224, ECO:0000269|PubMed:18302930, ECO:0000269|PubMed:19247789}.FUNCTION: Probable component of the protein complex eIF4F, which is involved in the recognition of the mRNA cap, ATP-dependent unwinding of 5'-terminal secondary structure and recruitment of mRNA to the ribosome. Thought to be a functional homolog of EIF4G1. {ECO:0000269|PubMed:9418880}.

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 CLIC4-EIF4G3


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 CLIC4-EIF4G3


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 CLIC4-EIF4G3


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 CLIC4-EIF4G3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCLIC4C0029408Degenerative polyarthritis1CTD_human
HgeneCLIC4C0033578Prostatic Neoplasms1CTD_human
HgeneCLIC4C0043094Weight Gain1CTD_human
HgeneCLIC4C0086743Osteoarthrosis Deformans1CTD_human
HgeneCLIC4C0376358Malignant neoplasm of prostate1CTD_human