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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:EPHA1-ZYX (FusionGDB2 ID:26950)

Fusion Gene Summary for EPHA1-ZYX

check button Fusion gene summary
Fusion gene informationFusion gene name: EPHA1-ZYX
Fusion gene ID: 26950
HgeneTgene
Gene symbol

EPHA1

ZYX

Gene ID

2041

7791

Gene nameEPH receptor A1zyxin
SynonymsEPH|EPHT|EPHT1ESP-2|HED-2
Cytomap

7q34-q35

7q34

Type of geneprotein-codingprotein-coding
Descriptionephrin type-A receptor 1eph tyrosine kinase 1erythropoietin-producing hepatoma amplified sequenceerythropoietin-producing hepatoma receptorhEpha1oncogene EPHsoluble EPHA1 variant 1soluble EPHA1 variant 2tyrosine-protein kinase receptor EPHzyxinzyxin-2
Modification date2020032020200327
UniProtAcc

P21709

ZYX

Ensembl transtripts involved in fusion geneENST00000275815, ENST00000458129, 
ENST00000322764, ENST00000392910, 
ENST00000449423, ENST00000477373, 
Fusion gene scores* DoF score8 X 9 X 3=21611 X 15 X 5=825
# samples 1014
** MAII scorelog2(10/216*10)=-1.11103131238874
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(14/825*10)=-2.55896729218821
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: EPHA1 [Title/Abstract] AND ZYX [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointEPHA1(143087423)-ZYX(143085861), # samples:1
EPHA1(143088071)-ZYX(143088069), # samples:1
EPHA1(143088137)-ZYX(143078840), # 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
HgeneEPHA1

GO:0001954

positive regulation of cell-matrix adhesion

19118217

HgeneEPHA1

GO:0006469

negative regulation of protein kinase activity

19118217

HgeneEPHA1

GO:0007166

cell surface receptor signaling pathway

19118217

HgeneEPHA1

GO:0018108

peptidyl-tyrosine phosphorylation

12775584

HgeneEPHA1

GO:0030336

negative regulation of cell migration

19118217

HgeneEPHA1

GO:0034446

substrate adhesion-dependent cell spreading

19118217

HgeneEPHA1

GO:0043087

regulation of GTPase activity

19118217

HgeneEPHA1

GO:0046777

protein autophosphorylation

19118217

HgeneEPHA1

GO:0090630

activation of GTPase activity

19118217


check buttonFusion gene breakpoints across EPHA1 (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 ZYX (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
ChimerDB4OVTCGA-31-1951-01AEPHA1chr7

143087423

-ZYXchr7

143085861

+
ChiTaRS5.0N/AAA654451EPHA1chr7

143088071

-ZYXchr7

143088069

-
ChiTaRS5.0N/ABU616088EPHA1chr7

143088137

-ZYXchr7

143078840

+


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Fusion Gene ORF analysis for EPHA1-ZYX

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-3CDSENST00000275815ENST00000322764EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000275815ENST00000322764EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-3CDSENST00000275815ENST00000392910EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000275815ENST00000449423EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000275815ENST00000449423EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-3CDSENST00000458129ENST00000322764EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000458129ENST00000322764EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-3CDSENST00000458129ENST00000392910EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000458129ENST00000449423EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-3CDSENST00000458129ENST00000449423EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-3UTRENST00000275815ENST00000322764EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-3UTRENST00000275815ENST00000392910EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-3UTRENST00000275815ENST00000449423EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-3UTRENST00000458129ENST00000322764EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-3UTRENST00000458129ENST00000392910EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-3UTRENST00000458129ENST00000449423EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-intronENST00000275815ENST00000392910EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-intronENST00000275815ENST00000477373EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-intronENST00000275815ENST00000477373EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-intronENST00000275815ENST00000477373EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-intronENST00000458129ENST00000392910EPHA1chr7

143088137

-ZYXchr7

143078840

+
intron-intronENST00000458129ENST00000477373EPHA1chr7

143087423

-ZYXchr7

143085861

+
intron-intronENST00000458129ENST00000477373EPHA1chr7

143088071

-ZYXchr7

143088069

-
intron-intronENST00000458129ENST00000477373EPHA1chr7

143088137

-ZYXchr7

143078840

+

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 EPHA1-ZYX


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)

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 EPHA1-ZYX


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/:143087423/:143085861)
- 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
EPHA1

P21709

ZYX

ZYX

FUNCTION: Receptor tyrosine kinase which binds promiscuously membrane-bound ephrin-A family ligands residing on adjacent cells, leading to contact-dependent bidirectional signaling into neighboring cells. The signaling pathway downstream of the receptor is referred to as forward signaling while the signaling pathway downstream of the ephrin ligand is referred to as reverse signaling. Binds with a low affinity EFNA3 and EFNA4 and with a high affinity to EFNA1 which most probably constitutes its cognate/functional ligand. Upon activation by EFNA1 induces cell attachment to the extracellular matrix inhibiting cell spreading and motility through regulation of ILK and downstream RHOA and RAC. Plays also a role in angiogenesis and regulates cell proliferation. May play a role in apoptosis. {ECO:0000269|PubMed:17634955, ECO:0000269|PubMed:19118217, ECO:0000269|PubMed:20043122}.572

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 EPHA1-ZYX


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 EPHA1-ZYX


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 EPHA1-ZYX


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 EPHA1-ZYX


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource