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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:EEF1A1-EEF1A1 (FusionGDB2 ID:25025)

Fusion Gene Summary for EEF1A1-EEF1A1

check button Fusion gene summary
Fusion gene informationFusion gene name: EEF1A1-EEF1A1
Fusion gene ID: 25025
HgeneTgene
Gene symbol

EEF1A1

EEF1A1

Gene ID

1915

1915

Gene nameeukaryotic translation elongation factor 1 alpha 1eukaryotic translation elongation factor 1 alpha 1
SynonymsCCS-3|CCS3|EE1A1|EEF-1|EEF1A|EF-Tu|EF1A|GRAF-1EF|LENG7|PTI1|eEF1A-1CCS-3|CCS3|EE1A1|EEF-1|EEF1A|EF-Tu|EF1A|GRAF-1EF|LENG7|PTI1|eEF1A-1
Cytomap

6q13

6q13

Type of geneprotein-codingprotein-coding
Descriptionelongation factor 1-alpha 1CTCL tumor antigenEF-1-alpha-1EF1a-like proteincervical cancer suppressor 3elongation factor 1 alpha subunitelongation factor Tuepididymis secretory sperm binding proteineukaryotic elongation factor 1 A-1eukaryotic tranelongation factor 1-alpha 1CTCL tumor antigenEF-1-alpha-1EF1a-like proteincervical cancer suppressor 3elongation factor 1 alpha subunitelongation factor Tuepididymis secretory sperm binding proteineukaryotic elongation factor 1 A-1eukaryotic tran
Modification date2020032720200327
UniProtAcc

P68104

Q5VTE0

Ensembl transtripts involved in fusion geneENST00000331523, ENST00000309268, 
ENST00000316292, ENST00000491404, 
ENST00000309268, ENST00000316292, 
ENST00000331523, ENST00000491404, 
Fusion gene scores* DoF score24 X 34 X 12=979238 X 33 X 8=10032
# samples 3841
** MAII scorelog2(38/9792*10)=-4.6875322343617
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(41/10032*10)=-4.61284153329659
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: EEF1A1 [Title/Abstract] AND EEF1A1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointEEF1A1(74227908)-EEF1A1(74227942), # samples:2
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
HgeneEEF1A1

GO:0071364

cellular response to epidermal growth factor stimulus

9852145

HgeneEEF1A1

GO:1900022

regulation of D-erythro-sphingosine kinase activity

18263879

TgeneEEF1A1

GO:0071364

cellular response to epidermal growth factor stimulus

9852145

TgeneEEF1A1

GO:1900022

regulation of D-erythro-sphingosine kinase activity

18263879


check buttonFusion gene breakpoints across EEF1A1 (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 EEF1A1 (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/AAA523147EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
ChiTaRS5.0N/AAA526444EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
ChiTaRS5.0N/AAA639904EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
ChiTaRS5.0N/AAA737260EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
ChiTaRS5.0N/ABE350396EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
ChiTaRS5.0N/ABE834506EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
ChiTaRS5.0N/ABI490956EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-


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Fusion Gene ORF analysis for EEF1A1-EEF1A1

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-3UTRENST00000331523ENST00000309268EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
5CDS-3UTRENST00000331523ENST00000316292EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
5CDS-3UTRENST00000331523ENST00000331523EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
5CDS-5UTRENST00000331523ENST00000491404EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3CDSENST00000309268ENST00000316292EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-3CDSENST00000309268ENST00000316292EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-3CDSENST00000316292ENST00000316292EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-3CDSENST00000316292ENST00000316292EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-3CDSENST00000331523ENST00000316292EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-3CDSENST00000331523ENST00000316292EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-3CDSENST00000491404ENST00000316292EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-3CDSENST00000491404ENST00000316292EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-3UTRENST00000309268ENST00000309268EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000309268ENST00000309268EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000309268ENST00000316292EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-3UTRENST00000309268ENST00000316292EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000309268ENST00000316292EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-3UTRENST00000309268ENST00000316292EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000309268ENST00000331523EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000309268ENST00000331523EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000316292ENST00000309268EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000316292ENST00000309268EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000316292ENST00000316292EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-3UTRENST00000316292ENST00000316292EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000316292ENST00000316292EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-3UTRENST00000316292ENST00000316292EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000316292ENST00000331523EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000316292ENST00000331523EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000331523ENST00000309268EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000331523ENST00000316292EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-3UTRENST00000331523ENST00000316292EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-3UTRENST00000331523ENST00000316292EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000331523ENST00000331523EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000491404ENST00000309268EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000491404ENST00000309268EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000491404ENST00000316292EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-3UTRENST00000491404ENST00000316292EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000491404ENST00000316292EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-3UTRENST00000491404ENST00000316292EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-3UTRENST00000491404ENST00000331523EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-3UTRENST00000491404ENST00000331523EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-5UTRENST00000309268ENST00000491404EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-5UTRENST00000309268ENST00000491404EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-5UTRENST00000316292ENST00000491404EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-5UTRENST00000316292ENST00000491404EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-5UTRENST00000331523ENST00000491404EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-5UTRENST00000491404ENST00000491404EEF1A1chr6

74227249

-EEF1A1chr6

74227301

+
intron-5UTRENST00000491404ENST00000491404EEF1A1chr6

74227539

+EEF1A1chr6

74227454

-
intron-intronENST00000309268ENST00000309268EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000309268ENST00000309268EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000309268ENST00000309268EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000309268ENST00000309268EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000309268ENST00000331523EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000309268ENST00000331523EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000309268ENST00000331523EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000309268ENST00000331523EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000309268ENST00000491404EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000309268ENST00000491404EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000309268ENST00000491404EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000309268ENST00000491404EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000316292ENST00000309268EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000316292ENST00000309268EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000316292ENST00000309268EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000316292ENST00000309268EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000316292ENST00000331523EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000316292ENST00000331523EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000316292ENST00000331523EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000316292ENST00000331523EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000316292ENST00000491404EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000316292ENST00000491404EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000316292ENST00000491404EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000316292ENST00000491404EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000331523ENST00000309268EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000331523ENST00000309268EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000331523ENST00000309268EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000331523ENST00000309268EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000331523ENST00000331523EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000331523ENST00000331523EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000331523ENST00000331523EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000331523ENST00000331523EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000331523ENST00000491404EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000331523ENST00000491404EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000331523ENST00000491404EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000331523ENST00000491404EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000491404ENST00000309268EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000491404ENST00000309268EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000491404ENST00000309268EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000491404ENST00000309268EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000491404ENST00000331523EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000491404ENST00000331523EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000491404ENST00000331523EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000491404ENST00000331523EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+
intron-intronENST00000491404ENST00000491404EEF1A1chr6

74227280

-EEF1A1chr6

74227217

+
intron-intronENST00000491404ENST00000491404EEF1A1chr6

74227908

-EEF1A1chr6

74227942

+
intron-intronENST00000491404ENST00000491404EEF1A1chr6

74225980

-EEF1A1chr6

74225860

+
intron-intronENST00000491404ENST00000491404EEF1A1chr6

74228790

-EEF1A1chr6

74228538

+

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 EEF1A1-EEF1A1


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 EEF1A1-EEF1A1


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/:74227908/:74227942)
- 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
EEF1A1

P68104

EEF1A1

Q5VTE0

FUNCTION: This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis. Plays a role in the positive regulation of IFNG transcription in T-helper 1 cells as part of an IFNG promoter-binding complex with TXK and PARP1 (PubMed:17177976). {ECO:0000269|PubMed:17177976}.FUNCTION: This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis. {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 EEF1A1-EEF1A1


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 EEF1A1-EEF1A1


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 EEF1A1-EEF1A1


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 EEF1A1-EEF1A1


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