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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:EIF3E-NDUFS2 (FusionGDB2 ID:HG3646TG4720)

Fusion Gene Summary for EIF3E-NDUFS2

check button Fusion gene summary
Fusion gene informationFusion gene name: EIF3E-NDUFS2
Fusion gene ID: hg3646tg4720
HgeneTgene
Gene symbol

EIF3E

NDUFS2

Gene ID

3646

4720

Gene nameeukaryotic translation initiation factor 3 subunit ENADH:ubiquinone oxidoreductase core subunit S2
SynonymsEIF3-P48|EIF3S6|INT6|eIF3-p46CI-49|MC1DN6
Cytomap('EIF3E')('NDUFS2')

8q23.1

1q23.3

Type of geneprotein-codingprotein-coding
Descriptioneukaryotic translation initiation factor 3 subunit EeIF-3 p48eukaryotic translation initiation factor 3 subunit 6eukaryotic translation initiation factor 3 subunit E isoform 2 transcripteukaryotic translation initiation factor 3, subunit 6 (48kD)eukaNADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrialCI-49kDNADH dehydrogenase (ubiquinone) Fe-S protein 2, 49kDa (NADH-coenzyme Q reductase)NADH-ubiquinone oxidoreductase 49 kDa subunitNADH-ubiquinone oxidoreductase NDUFS2 subunitcomp
Modification date2020031320200313
UniProtAcc.

O75306

Ensembl transtripts involved in fusion geneENST00000220849, ENST00000519030, 
ENST00000519517, 
Fusion gene scores* DoF score13 X 12 X 7=10927 X 8 X 5=280
# samples 169
** MAII scorelog2(16/1092*10)=-2.77082904603249
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(9/280*10)=-1.63742992061529
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: EIF3E [Title/Abstract] AND NDUFS2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointEIF3E(109240495)-NDUFS2(161182140), # samples:1
Anticipated loss of major functional domain due to fusion event.EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
EIF3E-NDUFS2 seems lost the major protein functional domain in Tgene partner, which is a essential gene 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
HgeneEIF3E

GO:0006413

translational initiation

17581632

TgeneNDUFS2

GO:0006979

response to oxidative stress

12857734


check buttonFusion gene breakpoints across EIF3E (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure
check buttonFusion gene breakpoints across NDUFS2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4Non-CancerTCGA-AA-3663-11AEIF3Echr8

109240495

-NDUFS2chr1

161182140

+


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Fusion Gene ORF analysis for EIF3E-NDUFS2

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-3UTRENST00000220849ENST00000465923EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5CDS-3UTRENST00000519030ENST00000465923EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5CDS-intronENST00000220849ENST00000476409EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5CDS-intronENST00000519030ENST00000476409EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5UTR-3CDSENST00000519517ENST00000367993EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5UTR-3CDSENST00000519517ENST00000392179EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5UTR-3UTRENST00000519517ENST00000465923EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
5UTR-intronENST00000519517ENST00000476409EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
Frame-shiftENST00000519030ENST00000367993EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
Frame-shiftENST00000519030ENST00000392179EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
In-frameENST00000220849ENST00000367993EIF3Echr8

109240495

-NDUFS2chr1

161182140

+
In-frameENST00000220849ENST00000392179EIF3Echr8

109240495

-NDUFS2chr1

161182140

+

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)
ENST00000220849EIF3Echr8109240495-ENST00000367993NDUFS2chr1161182140+1393785631190375
ENST00000220849EIF3Echr8109240495-ENST00000392179NDUFS2chr1161182140+1624785631172369

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
ENST00000220849ENST00000367993EIF3Echr8109240495-NDUFS2chr1161182140+0.0003566190.9996433
ENST00000220849ENST00000392179EIF3Echr8109240495-NDUFS2chr1161182140+0.000404670.99959534

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Fusion Genomic Features for EIF3E-NDUFS2


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)
EIF3Echr8109240495-NDUFS2chr1161182140+3.07E-050.99996936
EIF3Echr8109240495-NDUFS2chr1161182140+3.07E-050.99996936

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for EIF3E-NDUFS2


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/chr8:109240495/chr1:161182140)
- 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
.NDUFS2

O75306

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) which catalyzes electron transfer from NADH through the respiratory chain, using ubiquinone as an electron acceptor (PubMed:30922174, PubMed:22036843). Essential for the catalytic activity of complex I (PubMed:30922174, PubMed:22036843). Essential for the assembly of complex I (By similarity). Redox-sensitive, critical component of the oxygen-sensing pathway in the pulmonary vasculature which plays a key role in acute pulmonary oxygen-sensing and hypoxic pulmonary vasoconstriction (PubMed:30922174). Plays an important role in carotid body sensing of hypoxia (By similarity). Essential for glia-like neural stem and progenitor cell proliferation, differentiation and subsequent oligodendrocyte or neuronal maturation (By similarity). {ECO:0000250|UniProtKB:Q91WD5, ECO:0000269|PubMed:22036843, ECO:0000269|PubMed:30922174}.

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
HgeneEIF3Echr8:109240495chr1:161182140ENST00000220849-713221_398240446.0DomainPCI


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Fusion Gene Sequence for EIF3E-NDUFS2


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.
>25827_25827_1_EIF3E-NDUFS2_EIF3E_chr8_109240495_ENST00000220849_NDUFS2_chr1_161182140_ENST00000367993_length(transcript)=1393nt_BP=785nt
TGTTCGTTTGTCGGCGCTACCAATAAAGTTTTAGTGAGCACAGACTCCCTTTTCTTTGGCAAGATGGCGGAGTACGACTTGACTACTCGC
ATCGCGCACTTTTTGGATCGGCATCTAGTCTTTCCGCTTCTTGAATTTCTCTCTGTAAAGGAGATATATAATGAAAAGGAATTATTACAA
GGTAAATTGGACCTTCTTAGTGATACCAACATGGTAGACTTTGCTATGGATGTATACAAAAACCTTTATTCTGATGATATTCCTCATGCT
TTGAGAGAGAAAAGAACCACAGTGGTTGCACAACTGAAACAGCTTCAGGCAGAAACAGAACCAATTGTGAAGATGTTTGAAGATCCAGAA
ACTACAAGGCAAATGCAGTCAACCAGGGATGGTAGGATGCTCTTTGACTACCTGGCGGACAAGCATGGTTTTAGGCAGGAATATTTAGAT
ACACTCTACAGATATGCAAAATTCCAGTACGAATGTGGGAATTACTCAGGAGCAGCAGAATATCTTTATTTTTTTAGAGTGCTGGTTCCA
GCAACAGATAGAAATGCTTTAAGTTCACTCTGGGGAAAGCTGGCCTCTGAAATCTTAATGCAGAATTGGGATGCAGCCATGGAAGACCTT
ACACGGTTAAAAGAGACCATAGATAATAATTCTGTGAGTTCTCCACTTCAGTCTCTTCAGCAGAGAACATGGCTCATTCACTGGTCTCTG
TTTGTTTTCTTCAATCACCCCAAAGGTCGCGATAATATTATTGACCTCTTCCTTTATCAGCCACAGTACCTGTGCCGGGTGGAGGAGATG
CGCCAGTCCCTGAGAATTATCGCACAGTGTCTAAACAAGATGCCTCCTGGGGAGATCAAGGTTGATGATGCCAAAGTGTCTCCACCTAAG
CGAGCAGAGATGAAGACTTCCATGGAGTCACTGATTCATCACTTTAAGTTGTATACTGAGGGCTACCAAGTTCCTCCAGGAGCCACATAT
ACTGCCATTGAGGCTCCCAAGGGAGAGTTTGGGGTGTACCTGGTGTCTGATGGCAGCAGCCGCCCTTATCGATGCAAGATCAAGGCTCCT
GGTTTTGCCCATCTGGCTGGTTTGGACAAGATGTCTAAGGGACACATGTTGGCAGATGTCGTTGCCATCATAGGTACCCAAGATATTGTA
TTTGGAGAAGTAGATCGGTGAGCAGGGGAGCAGCGTTTGATCCCCCCTGCCTATCAGCTTCTTCTGTGGAGCCTGTTCCTCACTGGAAAT
TGGCCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTTCATGTACACTTGGCTGTCAGGCTTTCTGTGCATGTACTAAAAAAGGA

>25827_25827_1_EIF3E-NDUFS2_EIF3E_chr8_109240495_ENST00000220849_NDUFS2_chr1_161182140_ENST00000367993_length(amino acids)=375AA_BP=241
MAEYDLTTRIAHFLDRHLVFPLLEFLSVKEIYNEKELLQGKLDLLSDTNMVDFAMDVYKNLYSDDIPHALREKRTTVVAQLKQLQAETEP
IVKMFEDPETTRQMQSTRDGRMLFDYLADKHGFRQEYLDTLYRYAKFQYECGNYSGAAEYLYFFRVLVPATDRNALSSLWGKLASEILMQ
NWDAAMEDLTRLKETIDNNSVSSPLQSLQQRTWLIHWSLFVFFNHPKGRDNIIDLFLYQPQYLCRVEEMRQSLRIIAQCLNKMPPGEIKV
DDAKVSPPKRAEMKTSMESLIHHFKLYTEGYQVPPGATYTAIEAPKGEFGVYLVSDGSSRPYRCKIKAPGFAHLAGLDKMSKGHMLADVV

--------------------------------------------------------------
>25827_25827_2_EIF3E-NDUFS2_EIF3E_chr8_109240495_ENST00000220849_NDUFS2_chr1_161182140_ENST00000392179_length(transcript)=1624nt_BP=785nt
TGTTCGTTTGTCGGCGCTACCAATAAAGTTTTAGTGAGCACAGACTCCCTTTTCTTTGGCAAGATGGCGGAGTACGACTTGACTACTCGC
ATCGCGCACTTTTTGGATCGGCATCTAGTCTTTCCGCTTCTTGAATTTCTCTCTGTAAAGGAGATATATAATGAAAAGGAATTATTACAA
GGTAAATTGGACCTTCTTAGTGATACCAACATGGTAGACTTTGCTATGGATGTATACAAAAACCTTTATTCTGATGATATTCCTCATGCT
TTGAGAGAGAAAAGAACCACAGTGGTTGCACAACTGAAACAGCTTCAGGCAGAAACAGAACCAATTGTGAAGATGTTTGAAGATCCAGAA
ACTACAAGGCAAATGCAGTCAACCAGGGATGGTAGGATGCTCTTTGACTACCTGGCGGACAAGCATGGTTTTAGGCAGGAATATTTAGAT
ACACTCTACAGATATGCAAAATTCCAGTACGAATGTGGGAATTACTCAGGAGCAGCAGAATATCTTTATTTTTTTAGAGTGCTGGTTCCA
GCAACAGATAGAAATGCTTTAAGTTCACTCTGGGGAAAGCTGGCCTCTGAAATCTTAATGCAGAATTGGGATGCAGCCATGGAAGACCTT
ACACGGTTAAAAGAGACCATAGATAATAATTCTGTGAGTTCTCCACTTCAGTCTCTTCAGCAGAGAACATGGCTCATTCACTGGTCTCTG
TTTGTTTTCTTCAATCACCCCAAAGGTCGCGATAATATTATTGACCTCTTCCTTTATCAGCCACAGTACCTGTGCCGGGTGGAGGAGATG
CGCCAGTCCCTGAGAATTATCGCACAGTGTCTAAACAAGATGCCTCCTGGGGAGATCAAGGTTGATGATGCCAAAGTGTCTCCACCTAAG
CGAGCAGAGATGAAGACTTCCATGGAGTCACTGATTCATCACTTTAAGTTGTATACTGAGGGCTACCAAGTTCCTCCAGGAGCCACATAT
ACTGCCATTGAGGCTCCCAAGGGAGAGTTTGGGGTGTACCTGGTGTCTGATGGCAGCAGCCGCCCTTATCGATGCAAGATCAAGGCTCCT
GGTTTTGCCCATCTGGCTGGTTTGGACAAGATGTCTAAGGGACACATGTTGGCAGATGTCGTTGCCATCATAGGTACGAGGCCTATTGTG
TAGTAGAGGTATCCTAGACAAAGGAGTTCGGGACGCCCACTGGGGACAGAAGGAGAACACTTCCTGTTCACCATAGGCCATGGCATGGAC
TCGGGTCCTCAATCTTTTGAGCACAGTAATGGGTTCTGGATCTTGGGTAACACCACTTTTTTTGTTTGTTTTGCCTCACAACAGGAAGAT
AAGTAACATCACTTTTTTCCTCCATCCTCTCACCTAGGTACCCAAGATATTGTATTTGGAGAAGTAGATCGGTGAGCAGGGGAGCAGCGT
TTGATCCCCCCTGCCTATCAGCTTCTTCTGTGGAGCCTGTTCCTCACTGGAAATTGGCCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
GTATGTTCATGTACACTTGGCTGTCAGGCTTTCTGTGCATGTACTAAAAAAGGAGAAATTATAATAAATTAGCCGTCTTGCGGCCCCTAG

>25827_25827_2_EIF3E-NDUFS2_EIF3E_chr8_109240495_ENST00000220849_NDUFS2_chr1_161182140_ENST00000392179_length(amino acids)=369AA_BP=241
MAEYDLTTRIAHFLDRHLVFPLLEFLSVKEIYNEKELLQGKLDLLSDTNMVDFAMDVYKNLYSDDIPHALREKRTTVVAQLKQLQAETEP
IVKMFEDPETTRQMQSTRDGRMLFDYLADKHGFRQEYLDTLYRYAKFQYECGNYSGAAEYLYFFRVLVPATDRNALSSLWGKLASEILMQ
NWDAAMEDLTRLKETIDNNSVSSPLQSLQQRTWLIHWSLFVFFNHPKGRDNIIDLFLYQPQYLCRVEEMRQSLRIIAQCLNKMPPGEIKV
DDAKVSPPKRAEMKTSMESLIHHFKLYTEGYQVPPGATYTAIEAPKGEFGVYLVSDGSSRPYRCKIKAPGFAHLAGLDKMSKGHMLADVV

--------------------------------------------------------------

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Fusion Gene PPI Analysis for EIF3E-NDUFS2


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 EIF3E-NDUFS2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneNDUFS2O75306DB00157NADHSmall moleculeApproved|Nutraceutical

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Related Diseases for EIF3E-NDUFS2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneEIF3EC0152013Adenocarcinoma of lung (disorder)1CTD_human
TgeneC1838979MITOCHONDRIAL COMPLEX I DEFICIENCY4GENOMICS_ENGLAND;ORPHANET
TgeneC0023264Leigh Disease2GENOMICS_ENGLAND
TgeneC4748759MITOCHONDRIAL COMPLEX I DEFICIENCY, NUCLEAR TYPE 62GENOMICS_ENGLAND;UNIPROT
TgeneC0033141Cardiomyopathies, Primary1CTD_human
TgeneC0036529Myocardial Diseases, Secondary1CTD_human
TgeneC0162666Mitochondrial Encephalomyopathies1CTD_human
TgeneC0751651Mitochondrial Diseases1GENOMICS_ENGLAND
TgeneC0878544Cardiomyopathies1CTD_human
TgeneC0917796Optic Atrophy, Hereditary, Leber1ORPHANET