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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:GREB1-EPHA6 (FusionGDB2 ID:34683)

Fusion Gene Summary for GREB1-EPHA6

check button Fusion gene summary
Fusion gene informationFusion gene name: GREB1-EPHA6
Fusion gene ID: 34683
HgeneTgene
Gene symbol

GREB1

EPHA6

Gene ID

9687

285220

Gene namegrowth regulating estrogen receptor binding 1EPH receptor A6
Synonyms-EHK-2|EHK2|EK12|EPA6|HEK12|PRO57066
Cytomap

2p25.1

3q11.2

Type of geneprotein-codingprotein-coding
Descriptionprotein GREB1gene regulated by estrogen in breast cancergene regulated in breast cancer 1 proteingrowth regulation by estrogen in breast cancer 1ephrin type-A receptor 6EPH homology kinase 2EPH-like kinase 12ephrin receptor EphA6
Modification date2020032920200313
UniProtAcc

Q4ZG55

Q9UF33

Ensembl transtripts involved in fusion geneENST00000234142, ENST00000263834, 
ENST00000381483, ENST00000381486, 
ENST00000389825, ENST00000396123, 
ENST00000389672, ENST00000442602, 
ENST00000470610, ENST00000502694, 
ENST00000514100, ENST00000542517, 
Fusion gene scores* DoF score4 X 4 X 3=4810 X 11 X 4=440
# samples 411
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(11/440*10)=-2
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GREB1 [Title/Abstract] AND EPHA6 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGREB1(11706021)-EPHA6(96747002), # 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

check buttonFusion gene breakpoints across GREB1 (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 EPHA6 (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
ChiTaRS5.0N/AEF580865GREB1chr2

11706021

+EPHA6chr3

96747002

+


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Fusion Gene ORF analysis for GREB1-EPHA6

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-intronENST00000234142ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000234142ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000234142ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000234142ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000234142ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000234142ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000263834ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381483ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000381486ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000389825ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000389672GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000442602GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000470610GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000502694GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000514100GREB1chr2

11706021

+EPHA6chr3

96747002

+
intron-intronENST00000396123ENST00000542517GREB1chr2

11706021

+EPHA6chr3

96747002

+

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 GREB1-EPHA6


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 GREB1-EPHA6


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/:11706021/:96747002)
- 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
GREB1

Q4ZG55

EPHA6

Q9UF33

FUNCTION: May play a role in estrogen-stimulated cell proliferation. Acts as a regulator of hormone-dependent cancer growth in breast and prostate cancers.FUNCTION: Receptor tyrosine kinase which binds promiscuously GPI-anchored 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 (By similarity). {ECO:0000250}.

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 GREB1-EPHA6


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 GREB1-EPHA6


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 GREB1-EPHA6


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 GREB1-EPHA6


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