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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:NRBF2-CYP26A1 (FusionGDB2 ID:60196)

Fusion Gene Summary for NRBF2-CYP26A1

check button Fusion gene summary
Fusion gene informationFusion gene name: NRBF2-CYP26A1
Fusion gene ID: 60196
HgeneTgene
Gene symbol

NRBF2

CYP26A1

Gene ID

29982

1592

Gene namenuclear receptor binding factor 2cytochrome P450 family 26 subfamily A member 1
SynonymsCOPR|COPR1|COPR2|NRBF-2CP26|CYP26|P450RAI|P450RAI1
Cytomap

10q21.3

10q23.33

Type of geneprotein-codingprotein-coding
Descriptionnuclear receptor-binding factor 2comodulator of PPAR and RXR 1comodulator of PPAR and RXR 2cytochrome P450 26A1P450, retinoic acid-inactivating, 1cytochrome P450 retinoic acid-inactivating 1cytochrome P450, family 26, subfamily A, polypeptide 1cytochrome P450, subfamily XXVIA, polypeptide 1cytochrome P450RAIhP450RAIretinoic acid 4-hydrox
Modification date2020031320200329
UniProtAcc

Q96F24

O43174

Ensembl transtripts involved in fusion geneENST00000435510, ENST00000277746, 
ENST00000224356, ENST00000371531, 
ENST00000394139, 
Fusion gene scores* DoF score9 X 6 X 5=2703 X 3 X 3=27
# samples 104
** MAII scorelog2(10/270*10)=-1.43295940727611
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/27*10)=0.567040592723894
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: NRBF2 [Title/Abstract] AND CYP26A1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNRBF2(64893260)-CYP26A1(94835583), # samples:3
Anticipated loss of major functional domain due to fusion event.NRBF2-CYP26A1 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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
TgeneCYP26A1

GO:0006805

xenobiotic metabolic process

26937021

TgeneCYP26A1

GO:0034653

retinoic acid catabolic process

10823918

TgeneCYP26A1

GO:0042573

retinoic acid metabolic process

9716180|22020119


check buttonFusion gene breakpoints across NRBF2 (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 CYP26A1 (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 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
ChimerDB4BRCATCGA-E2-A576-01ANRBF2chr10

64893260

-CYP26A1chr10

94835583

+
ChimerDB4BRCATCGA-E2-A576-01ANRBF2chr10

64893260

+CYP26A1chr10

94835583

+


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Fusion Gene ORF analysis for NRBF2-CYP26A1

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
Frame-shiftENST00000435510ENST00000224356NRBF2chr10

64893260

+CYP26A1chr10

94835583

+
Frame-shiftENST00000435510ENST00000371531NRBF2chr10

64893260

+CYP26A1chr10

94835583

+
Frame-shiftENST00000435510ENST00000394139NRBF2chr10

64893260

+CYP26A1chr10

94835583

+
In-frameENST00000277746ENST00000224356NRBF2chr10

64893260

+CYP26A1chr10

94835583

+
In-frameENST00000277746ENST00000371531NRBF2chr10

64893260

+CYP26A1chr10

94835583

+
In-frameENST00000277746ENST00000394139NRBF2chr10

64893260

+CYP26A1chr10

94835583

+

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)
ENST00000277746NRBF2chr1064893260+ENST00000371531CYP26A1chr1094835583+142121164840258
ENST00000277746NRBF2chr1064893260+ENST00000224356CYP26A1chr1094835583+142721164840258
ENST00000277746NRBF2chr1064893260+ENST00000394139CYP26A1chr1094835583+142721164840258

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
ENST00000277746ENST00000371531NRBF2chr1064893260+CYP26A1chr1094835583+0.0008052170.9991948
ENST00000277746ENST00000224356NRBF2chr1064893260+CYP26A1chr1094835583+0.0008188560.9991811
ENST00000277746ENST00000394139NRBF2chr1064893260+CYP26A1chr1094835583+0.0008188560.9991811

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Fusion Genomic Features for NRBF2-CYP26A1


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)
NRBF2chr1064893260+CYP26A1chr1094835582+0.0001001010.99989986
NRBF2chr1064893260+CYP26A1chr1094835582+0.0001001010.99989986

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 NRBF2-CYP26A1


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/chr10:64893260/chr10:94835583)
- 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
NRBF2

Q96F24

CYP26A1

O43174

FUNCTION: May modulate transcriptional activation by target nuclear receptors. Can act as transcriptional activator (in vitro). {ECO:0000269|PubMed:15610520}.; FUNCTION: Involved in starvation-induced autophagy probably by its association with PI3K complex I (PI3KC3-C1). However, effects has been described variably. Involved in the induction of starvation-induced autophagy (PubMed:24785657). Stabilzes PI3KC3-C1 assembly and enhances ATG14-linked lipid kinase activity of PIK3C3 (By similarity). Proposed to negatively regulate basal and starvation-induced autophagy and to inhibit PIK3C3 activity by modulating interactions in PI3KC3-C1 (PubMed:25086043). May be involved in autophagosome biogenesis (PubMed:25086043). May play a role in neural progenitor cell survival during differentiation (By similarity). {ECO:0000250|UniProtKB:Q8VCQ3, ECO:0000269|PubMed:24785657, ECO:0000269|PubMed:25086043}.FUNCTION: A cytochrome P450 monooxygenase involved in the metabolism of all-trans retinoic acid (atRA), a signaling molecule that binds to retinoic acid receptors and regulates gene transcription. Mechanistically, uses molecular oxygen inserting one oxygen atom into a substrate, and reducing the second into a water molecule, with two electrons provided by NADPH via cytochrome P450 reductase (CPR; NADPH-ferrihemoprotein reductase). Catalyzes the hydroxylation of carbon hydrogen bonds of atRA primarily at C-4 and C-18. Has no activity toward 9-cis and 13-cis retinoic acid stereoisomers (PubMed:22020119, PubMed:9228017, PubMed:9716180). May play a role in the oxidative metabolism of xenobiotics such as tazarotenic acid (PubMed:26937021). {ECO:0000269|PubMed:22020119, ECO:0000269|PubMed:26937021, ECO:0000269|PubMed:9228017, ECO:0000269|PubMed:9716180}.

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
HgeneNRBF2chr10:64893260chr10:94835583ENST00000277746+14168_20910288.0Coiled coilOntology_term=ECO:0000255


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Fusion Gene Sequence for NRBF2-CYP26A1


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.
>60196_60196_1_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000224356_length(transcript)=1427nt_BP=211nt
CGCGGCGCGGCGCCGGAGGAGGAAGTGGTGAGGTTGTTGCTCCTTCAGCGCCTATCGCTGGCTCTTGGGGCGCAGAGAGGGGCCGCAGTC
TCCGCGGCTGCGTCGAGCTCCCTTGCAGTCCCCTCCATGTTCCCCGGCGCCACTACTCCCCTTCCTAAGGCCGCCGCTTACCCCGGGGTC
TATGGAAGTAATGGAAGGACCCCTCAACCTGGCACTAAAGCAATCTTCAACCGAACTCCTCTTTGGAGGACACGAAACCACGGCCAGTGC
AGCCACATCTCTGATCACTTACCTGGGGCTCTACCCACATGTTCTCCAGAAAGTGCGAGAAGAGCTGAAGAGTAAGGGTTTACTTTGCAA
GAGCAATCAAGACAACAAGTTGGACATGGAAATTTTGGAACAACTTAAATACATCGGGTGTGTTATTAAGGAGACCCTTCGACTGAATCC
CCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAATTAAATGGATACCAGATTCCCAAGGGCTGGAATGTTATCTACAGTAT
CTGTGATACTCATGATGTGGCAGAGATCTTCACCAACAAGGAAGAATTTAATCCTGACCGATTCATGCTGCCTCACCCAGAGGATGCATC
CAGGTTCAGCTTCATTCCATTTGGAGGAGGCCTTAGGAGCTGTGTAGGCAAAGAATTTGCAAAAATTCTTCTCAAAATATTTACAGTGGA
GCTGGCCAGGCATTGTGACTGGCAGCTTCTAAATGGACCTCCTACAATGAAAACCAGTCCCACCGTGTATCCTGTGGACAATCTCCCTGC
AAGATTCACCCATTTCCATGGGGAAATCTGATGAGCTTGAATGTTCAAACCTGAGACTTATTGGAAGTGTACATATGAGTTTTTAAGGAG
TGTTGTGTTGACTTTATATTTAATTTCTAAATGTATATTATAATATTTATGTGTTTTGACTATACTACCACAATCTTTAAATATTAAAAT
AATGAATTTGTATCATTTCCAAATAAAGTAAAATTTGAAGGTACTTTTCTGGTATTTTAAGATTCCTGTTGGGTAAAACTCACCAGTTTA
GTATTTTCTTAGTGTATTTAACCAGATTTTACAATGCCTACCTGGACTTATTTGTCATCTTTGCATCTGTTTTCTGTGAGAAGAAATCTT
AGCTGTTTTTTATGTTAACAGTTATTAGAAAATATATGTCTGTGTGTGTTATTCCAGACGTATCTCTGTAAATTCTTCTACAGTCACTTA
GATTCCCTATTTGGAAAATTGATCCAAGTTAATTTAATTTTTTTTTGGTTTGCTGTACTTTAGGGAAAGATGAACCTGAAAAGGTAACAC

>60196_60196_1_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000224356_length(amino acids)=258AA_BP=49
MGRREGPQSPRLRRAPLQSPPCSPAPLLPFLRPPLTPGSMEVMEGPLNLALKQSSTELLFGGHETTASAATSLITYLGLYPHVLQKVREE
LKSKGLLCKSNQDNKLDMEILEQLKYIGCVIKETLRLNPPVPGGFRVALKTFELNGYQIPKGWNVIYSICDTHDVAEIFTNKEEFNPDRF

--------------------------------------------------------------
>60196_60196_2_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000371531_length(transcript)=1421nt_BP=211nt
CGCGGCGCGGCGCCGGAGGAGGAAGTGGTGAGGTTGTTGCTCCTTCAGCGCCTATCGCTGGCTCTTGGGGCGCAGAGAGGGGCCGCAGTC
TCCGCGGCTGCGTCGAGCTCCCTTGCAGTCCCCTCCATGTTCCCCGGCGCCACTACTCCCCTTCCTAAGGCCGCCGCTTACCCCGGGGTC
TATGGAAGTAATGGAAGGACCCCTCAACCTGGCACTAAAGCAATCTTCAACCGAACTCCTCTTTGGAGGACACGAAACCACGGCCAGTGC
AGCCACATCTCTGATCACTTACCTGGGGCTCTACCCACATGTTCTCCAGAAAGTGCGAGAAGAGCTGAAGAGTAAGGGTTTACTTTGCAA
GAGCAATCAAGACAACAAGTTGGACATGGAAATTTTGGAACAACTTAAATACATCGGGTGTGTTATTAAGGAGACCCTTCGACTGAATCC
CCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAATTAAATGGATACCAGATTCCCAAGGGCTGGAATGTTATCTACAGTAT
CTGTGATACTCATGATGTGGCAGAGATCTTCACCAACAAGGAAGAATTTAATCCTGACCGATTCATGCTGCCTCACCCAGAGGATGCATC
CAGGTTCAGCTTCATTCCATTTGGAGGAGGCCTTAGGAGCTGTGTAGGCAAAGAATTTGCAAAAATTCTTCTCAAAATATTTACAGTGGA
GCTGGCCAGGCATTGTGACTGGCAGCTTCTAAATGGACCTCCTACAATGAAAACCAGTCCCACCGTGTATCCTGTGGACAATCTCCCTGC
AAGATTCACCCATTTCCATGGGGAAATCTGATGAGCTTGAATGTTCAAACCTGAGACTTATTGGAAGTGTACATATGAGTTTTTAAGGAG
TGTTGTGTTGACTTTATATTTAATTTCTAAATGTATATTATAATATTTATGTGTTTTGACTATACTACCACAATCTTTAAATATTAAAAT
AATGAATTTGTATCATTTCCAAATAAAGTAAAATTTGAAGGTACTTTTCTGGTATTTTAAGATTCCTGTTGGGTAAAACTCACCAGTTTA
GTATTTTCTTAGTGTATTTAACCAGATTTTACAATGCCTACCTGGACTTATTTGTCATCTTTGCATCTGTTTTCTGTGAGAAGAAATCTT
AGCTGTTTTTTATGTTAACAGTTATTAGAAAATATATGTCTGTGTGTGTTATTCCAGACGTATCTCTGTAAATTCTTCTACAGTCACTTA
GATTCCCTATTTGGAAAATTGATCCAAGTTAATTTAATTTTTTTTTGGTTTGCTGTACTTTAGGGAAAGATGAACCTGAAAAGGTAACAC

>60196_60196_2_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000371531_length(amino acids)=258AA_BP=49
MGRREGPQSPRLRRAPLQSPPCSPAPLLPFLRPPLTPGSMEVMEGPLNLALKQSSTELLFGGHETTASAATSLITYLGLYPHVLQKVREE
LKSKGLLCKSNQDNKLDMEILEQLKYIGCVIKETLRLNPPVPGGFRVALKTFELNGYQIPKGWNVIYSICDTHDVAEIFTNKEEFNPDRF

--------------------------------------------------------------
>60196_60196_3_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000394139_length(transcript)=1427nt_BP=211nt
CGCGGCGCGGCGCCGGAGGAGGAAGTGGTGAGGTTGTTGCTCCTTCAGCGCCTATCGCTGGCTCTTGGGGCGCAGAGAGGGGCCGCAGTC
TCCGCGGCTGCGTCGAGCTCCCTTGCAGTCCCCTCCATGTTCCCCGGCGCCACTACTCCCCTTCCTAAGGCCGCCGCTTACCCCGGGGTC
TATGGAAGTAATGGAAGGACCCCTCAACCTGGCACTAAAGCAATCTTCAACCGAACTCCTCTTTGGAGGACACGAAACCACGGCCAGTGC
AGCCACATCTCTGATCACTTACCTGGGGCTCTACCCACATGTTCTCCAGAAAGTGCGAGAAGAGCTGAAGAGTAAGGGTTTACTTTGCAA
GAGCAATCAAGACAACAAGTTGGACATGGAAATTTTGGAACAACTTAAATACATCGGGTGTGTTATTAAGGAGACCCTTCGACTGAATCC
CCCAGTTCCAGGAGGGTTTCGGGTTGCTCTGAAGACTTTTGAATTAAATGGATACCAGATTCCCAAGGGCTGGAATGTTATCTACAGTAT
CTGTGATACTCATGATGTGGCAGAGATCTTCACCAACAAGGAAGAATTTAATCCTGACCGATTCATGCTGCCTCACCCAGAGGATGCATC
CAGGTTCAGCTTCATTCCATTTGGAGGAGGCCTTAGGAGCTGTGTAGGCAAAGAATTTGCAAAAATTCTTCTCAAAATATTTACAGTGGA
GCTGGCCAGGCATTGTGACTGGCAGCTTCTAAATGGACCTCCTACAATGAAAACCAGTCCCACCGTGTATCCTGTGGACAATCTCCCTGC
AAGATTCACCCATTTCCATGGGGAAATCTGATGAGCTTGAATGTTCAAACCTGAGACTTATTGGAAGTGTACATATGAGTTTTTAAGGAG
TGTTGTGTTGACTTTATATTTAATTTCTAAATGTATATTATAATATTTATGTGTTTTGACTATACTACCACAATCTTTAAATATTAAAAT
AATGAATTTGTATCATTTCCAAATAAAGTAAAATTTGAAGGTACTTTTCTGGTATTTTAAGATTCCTGTTGGGTAAAACTCACCAGTTTA
GTATTTTCTTAGTGTATTTAACCAGATTTTACAATGCCTACCTGGACTTATTTGTCATCTTTGCATCTGTTTTCTGTGAGAAGAAATCTT
AGCTGTTTTTTATGTTAACAGTTATTAGAAAATATATGTCTGTGTGTGTTATTCCAGACGTATCTCTGTAAATTCTTCTACAGTCACTTA
GATTCCCTATTTGGAAAATTGATCCAAGTTAATTTAATTTTTTTTTGGTTTGCTGTACTTTAGGGAAAGATGAACCTGAAAAGGTAACAC

>60196_60196_3_NRBF2-CYP26A1_NRBF2_chr10_64893260_ENST00000277746_CYP26A1_chr10_94835583_ENST00000394139_length(amino acids)=258AA_BP=49
MGRREGPQSPRLRRAPLQSPPCSPAPLLPFLRPPLTPGSMEVMEGPLNLALKQSSTELLFGGHETTASAATSLITYLGLYPHVLQKVREE
LKSKGLLCKSNQDNKLDMEILEQLKYIGCVIKETLRLNPPVPGGFRVALKTFELNGYQIPKGWNVIYSICDTHDVAEIFTNKEEFNPDRF

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

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Fusion Gene PPI Analysis for NRBF2-CYP26A1


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 NRBF2-CYP26A1


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 NRBF2-CYP26A1


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