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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:NR4A2-NR4A2 (FusionGDB2 ID:60178)

Fusion Gene Summary for NR4A2-NR4A2

check button Fusion gene summary
Fusion gene informationFusion gene name: NR4A2-NR4A2
Fusion gene ID: 60178
HgeneTgene
Gene symbol

NR4A2

NR4A2

Gene ID

4929

4929

Gene namenuclear receptor subfamily 4 group A member 2nuclear receptor subfamily 4 group A member 2
SynonymsHZF-3|NOT|NURR1|RNR1|TINURHZF-3|NOT|NURR1|RNR1|TINUR
Cytomap

2q24.1

2q24.1

Type of geneprotein-codingprotein-coding
Descriptionnuclear receptor subfamily 4 group A member 2NGFI-B/nur77 beta-type transcription factor homologT-cell nuclear receptor NOTimmediate-early response protein NOTintermediate-early receptor proteinnuclear receptor related 1nur related protein-1, human nuclear receptor subfamily 4 group A member 2NGFI-B/nur77 beta-type transcription factor homologT-cell nuclear receptor NOTimmediate-early response protein NOTintermediate-early receptor proteinnuclear receptor related 1nur related protein-1, human
Modification date2020031320200313
UniProtAcc

P43354

P43354

Ensembl transtripts involved in fusion geneENST00000339562, ENST00000409108, 
ENST00000409572, ENST00000426264, 
ENST00000429376, ENST00000539077, 
ENST00000339562, ENST00000409572, 
ENST00000426264, ENST00000539077, 
ENST00000409108, ENST00000429376, 
Fusion gene scores* DoF score3 X 5 X 2=304 X 6 X 3=72
# samples 45
** MAII scorelog2(4/30*10)=0.415037499278844
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(5/72*10)=-0.526068811667588
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NR4A2 [Title/Abstract] AND NR4A2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNR4A2(157182014)-NR4A2(157181981), # 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
HgeneNR4A2

GO:0006351

transcription, DNA-templated

17184956

HgeneNR4A2

GO:0031668

cellular response to extracellular stimulus

7877627

TgeneNR4A2

GO:0006351

transcription, DNA-templated

17184956

TgeneNR4A2

GO:0031668

cellular response to extracellular stimulus

7877627


check buttonFusion gene breakpoints across NR4A2 (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 NR4A2 (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/ADL056036NR4A2chr2

157182014

-NR4A2chr2

157181981

+


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Fusion Gene ORF analysis for NR4A2-NR4A2

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-3UTRENST00000339562ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000339562ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000339562ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000339562ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409108ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409108ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409108ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409108ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409572ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409572ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409572ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000409572ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000426264ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000426264ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000426264ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000426264ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000429376ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000429376ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000429376ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000429376ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000539077ENST00000339562NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000539077ENST00000409572NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000539077ENST00000426264NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-3UTRENST00000539077ENST00000539077NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000339562ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000339562ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000409108ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000409108ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000409572ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000409572ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000426264ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000426264ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000429376ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000429376ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000539077ENST00000409108NR4A2chr2

157182014

-NR4A2chr2

157181981

+
intron-intronENST00000539077ENST00000429376NR4A2chr2

157182014

-NR4A2chr2

157181981

+

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 NR4A2-NR4A2


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 NR4A2-NR4A2


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/:157182014/:157181981)
- 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
NR4A2

P43354

NR4A2

P43354

FUNCTION: Transcriptional regulator which is important for the differentiation and maintenance of meso-diencephalic dopaminergic (mdDA) neurons during development. It is crucial for expression of a set of genes such as SLC6A3, SLC18A2, TH and DRD2 which are essential for development of mdDA neurons (By similarity). {ECO:0000250, ECO:0000269|PubMed:17184956}.FUNCTION: Transcriptional regulator which is important for the differentiation and maintenance of meso-diencephalic dopaminergic (mdDA) neurons during development. It is crucial for expression of a set of genes such as SLC6A3, SLC18A2, TH and DRD2 which are essential for development of mdDA neurons (By similarity). {ECO:0000250, ECO:0000269|PubMed:17184956}.

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 NR4A2-NR4A2


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 NR4A2-NR4A2


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 NR4A2-NR4A2


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 NR4A2-NR4A2


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