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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:NFE2L2-VMP1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: NFE2L2-VMP1
FusionPDB ID: 58849
FusionGDB2.0 ID: 58849
HgeneTgene
Gene symbol

NFE2L2

VMP1

Gene ID

4780

81671

Gene namenuclear factor, erythroid 2 like 2vacuole membrane protein 1
SynonymsHEBP1|IMDDHH|NRF2|Nrf-2EPG3|TANGO5|TMEM49
Cytomap

2q31.2

17q23.1

Type of geneprotein-codingprotein-coding
Descriptionnuclear factor erythroid 2-related factor 2nuclear factor erythroid-derived 2-like 2vacuole membrane protein 1ectopic P-granules autophagy protein 3 homologtransmembrane protein 49transport and golgi organization 5 homolog
Modification date2020032920200327
UniProtAcc

Q16236

Main function of 5'-partner protein: FUNCTION: Transcription factor that plays a key role in the response to oxidative stress: binds to antioxidant response (ARE) elements present in the promoter region of many cytoprotective genes, such as phase 2 detoxifying enzymes, and promotes their expression, thereby neutralizing reactive electrophiles (PubMed:11035812, PubMed:19489739, PubMed:29018201, PubMed:31398338). In normal conditions, ubiquitinated and degraded in the cytoplasm by the BCR(KEAP1) complex (PubMed:11035812, PubMed:15601839, PubMed:29018201). In response to oxidative stress, electrophile metabolites inhibit activity of the BCR(KEAP1) complex, promoting nuclear accumulation of NFE2L2/NRF2, heterodimerization with one of the small Maf proteins and binding to ARE elements of cytoprotective target genes (PubMed:19489739, PubMed:29590092). The NFE2L2/NRF2 pathway is also activated in response to selective autophagy: autophagy promotes interaction between KEAP1 and SQSTM1/p62 and subsequent inactivation of the BCR(KEAP1) complex, leading to NFE2L2/NRF2 nuclear accumulation and expression of cytoprotective genes (PubMed:20452972). May also be involved in the transcriptional activation of genes of the beta-globin cluster by mediating enhancer activity of hypersensitive site 2 of the beta-globin locus control region (PubMed:7937919). {ECO:0000269|PubMed:11035812, ECO:0000269|PubMed:15601839, ECO:0000269|PubMed:19489739, ECO:0000269|PubMed:20452972, ECO:0000269|PubMed:29018201, ECO:0000269|PubMed:29590092, ECO:0000269|PubMed:31398338, ECO:0000269|PubMed:7937919}.		.
Ensembl transtripts involved in fusion geneENST idsENST00000397062, ENST00000397063, 
ENST00000423513, ENST00000446151, 
ENST00000464747, 		ENST00000588617, 
ENST00000262291, ENST00000536180, 
ENST00000537567, ENST00000539763, 
ENST00000545362, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score18 X 18 X 9=291642 X 34 X 19=27132
# samples 29151
** MAII scorelog2(29/2916*10)=-3.329865914312
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(151/27132*10)=-4.16737494326024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: NFE2L2 [Title/Abstract] AND VMP1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: NFE2L2 [Title/Abstract] AND VMP1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)NFE2L2(178129260)-VMP1(57851115), # samples:3
Anticipated loss of major functional domain due to fusion event.NFE2L2-VMP1 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.
NFE2L2-VMP1 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.
* 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
HgeneNFE2L2

GO:0010499

proteasomal ubiquitin-independent protein catabolic process

19424503

HgeneNFE2L2

GO:0016567

protein ubiquitination

15983046

HgeneNFE2L2

GO:0043161

proteasome-mediated ubiquitin-dependent protein catabolic process

15983046

HgeneNFE2L2

GO:0045944

positive regulation of transcription by RNA polymerase II

17015834

HgeneNFE2L2

GO:0071498

cellular response to fluid shear stress

25190803



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/chr2:178129260/chr17:57851115)
- 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 buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across NFE2L2 (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 VMP1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Amino Acid Sequences


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000397062NFE2L2chr2178129260-ENST00000262291VMP1chr1757851115+24206005551238227
ENST00000397062NFE2L2chr2178129260-ENST00000537567VMP1chr1757851115+14996005551238227
ENST00000397062NFE2L2chr2178129260-ENST00000539763VMP1chr1757851115+14596005551238227
ENST00000397062NFE2L2chr2178129260-ENST00000536180VMP1chr1757851115+13316005551238227
ENST00000397062NFE2L2chr2178129260-ENST00000545362VMP1chr1757851115+14916005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000262291VMP1chr1757851114+24206005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000537567VMP1chr1757851114+14996005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000539763VMP1chr1757851114+14596005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000536180VMP1chr1757851114+13316005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000545362VMP1chr1757851114+14916005551238227
ENST00000397062NFE2L2chr2178129259-ENST00000262291VMP1chr1757886156+2288600137700187
ENST00000397062NFE2L2chr2178129259-ENST00000537567VMP1chr1757886156+1367600137700187
ENST00000397062NFE2L2chr2178129259-ENST00000539763VMP1chr1757886156+1327600137700187
ENST00000397062NFE2L2chr2178129259-ENST00000536180VMP1chr1757886156+1199600137700187
ENST00000397062NFE2L2chr2178129259-ENST00000545362VMP1chr1757886156+1359600137700187
ENST00000397062NFE2L2chr2178129260-ENST00000262291VMP1chr1757886157+2288600137700187
ENST00000397062NFE2L2chr2178129260-ENST00000537567VMP1chr1757886157+1367600137700187
ENST00000397062NFE2L2chr2178129260-ENST00000539763VMP1chr1757886157+1327600137700187
ENST00000397062NFE2L2chr2178129260-ENST00000536180VMP1chr1757886157+1199600137700187
ENST00000397062NFE2L2chr2178129260-ENST00000545362VMP1chr1757886157+1359600137700187

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
ENST00000397062ENST00000262291NFE2L2chr2178129260-VMP1chr1757851115+0.0006418440.9993581
ENST00000397062ENST00000537567NFE2L2chr2178129260-VMP1chr1757851115+0.0020298730.99797016
ENST00000397062ENST00000539763NFE2L2chr2178129260-VMP1chr1757851115+0.0023264440.9976736
ENST00000397062ENST00000536180NFE2L2chr2178129260-VMP1chr1757851115+0.0036022920.99639773
ENST00000397062ENST00000545362NFE2L2chr2178129260-VMP1chr1757851115+0.0021241220.9978759
ENST00000397062ENST00000262291NFE2L2chr2178129259-VMP1chr1757851114+0.0006418440.9993581
ENST00000397062ENST00000537567NFE2L2chr2178129259-VMP1chr1757851114+0.0020298730.99797016
ENST00000397062ENST00000539763NFE2L2chr2178129259-VMP1chr1757851114+0.0023264440.9976736
ENST00000397062ENST00000536180NFE2L2chr2178129259-VMP1chr1757851114+0.0036022920.99639773
ENST00000397062ENST00000545362NFE2L2chr2178129259-VMP1chr1757851114+0.0021241220.9978759
ENST00000397062ENST00000262291NFE2L2chr2178129259-VMP1chr1757886156+0.0052783310.99472165
ENST00000397062ENST00000537567NFE2L2chr2178129259-VMP1chr1757886156+0.0073989470.992601
ENST00000397062ENST00000539763NFE2L2chr2178129259-VMP1chr1757886156+0.0081397140.99186033
ENST00000397062ENST00000536180NFE2L2chr2178129259-VMP1chr1757886156+0.0130111680.9869889
ENST00000397062ENST00000545362NFE2L2chr2178129259-VMP1chr1757886156+0.0076982770.9923017
ENST00000397062ENST00000262291NFE2L2chr2178129260-VMP1chr1757886157+0.0052783310.99472165
ENST00000397062ENST00000537567NFE2L2chr2178129260-VMP1chr1757886157+0.0073989470.992601
ENST00000397062ENST00000539763NFE2L2chr2178129260-VMP1chr1757886157+0.0081397140.99186033
ENST00000397062ENST00000536180NFE2L2chr2178129260-VMP1chr1757886157+0.0130111680.9869889
ENST00000397062ENST00000545362NFE2L2chr2178129260-VMP1chr1757886157+0.0076982770.9923017

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for NFE2L2-VMP1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
NFE2L2chr2178129259VMP1chr175785111460015DLELPPPGLPSQQGIGTAIGELPPYF
NFE2L2chr2178129259VMP1chr1757886156600154GLGAAAAGTPVPAGLCLPGQTGSSKT
NFE2L2chr2178129260VMP1chr175785111560015DLELPPPGLPSQQGIGTAIGELPPYF
NFE2L2chr2178129260VMP1chr1757886157600154GLGAAAAGTPVPAGLCLPGQTGSSKT

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Potential FusionNeoAntigen Information of NFE2L2-VMP1 in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
NFE2L2-VMP1_178129259_57851114.msa
NFE2L2-VMP1_178129259_57886156.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:01SQQGIGTAI0.7790.64391019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:13SQQGIGTAI0.76170.71261019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B13:02SQQGIGTAI0.74040.69091019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B38:01SQQGIGTAI0.73090.83831019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:03SQQGIGTAI0.6290.59991019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B13:01SQQGIGTAI0.5590.92631019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B52:01SQQGIGTAI0.08510.95321019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:04SQQGIGTAI0.84980.83051019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:08SQQGIGTAI0.78920.62391019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:05SQQGIGTAI0.71840.62971019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:73SQQGIGTAI0.94230.8291019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:30SQQGIGTAI0.87070.75841019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:31SQQGIGTAI0.80650.64861019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:02SQQGIGTAI0.80190.70521019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:53SQQGIGTAI0.78060.76161019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:54SQQGIGTAI0.78030.7171019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B38:05SQQGIGTAI0.73090.83831019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B39:11SQQGIGTAI0.69720.53871019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:12SQQGIGTAI0.46120.7281019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B48:02SQQGIGTAI0.41390.78291019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B15:09SQQGIGTAI0.38210.66961019
NFE2L2-VMP1chr2178129259chr1757851114600HLA-B67:01LPSQQGIGTAI0.86770.7158819
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:02TPVPAGLCL0.99150.5271817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:03TPVPAGLCL0.9270.7043817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:01TPVPAGLCL0.89670.6626817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:08TPVPAGLCL0.85250.6761817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:02TPVPAGLCL0.82410.8577817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:04TPVPAGLCL0.82410.8577817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B81:01TPVPAGLCL0.13720.5505817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B82:01TPVPAGLCL0.01790.5602817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B81:01AGTPVPAGLCL0.95660.7615617
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:05AGTPVPAGLCL0.87230.5278617
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:12TPVPAGLCL0.94750.6183817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:12TPVPAGLCL0.82410.8577817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B39:10TPVPAGLCL0.64490.8116817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B39:09TPVPAGLCL0.64270.647817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B42:02TPVPAGLCL0.27850.6886817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B42:01TPVPAGLCL0.20850.682817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:12GTPVPAGLCL0.71360.6229717
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:12AGTPVPAGLCL0.89830.5703617
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:09TPVPAGLCL0.99180.5377817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B07:22TPVPAGLCL0.99150.5271817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:23TPVPAGLCL0.91070.6824817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:13TPVPAGLCL0.90780.7117817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:77TPVPAGLCL0.89670.6626817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:09TPVPAGLCL0.82410.8577817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:30TPVPAGLCL0.77220.5752817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:17TPVPAGLCL0.77220.5752817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:11TPVPAGLCL0.7150.673817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:24TPVPAGLCL0.70840.6613817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B67:01TPVPAGLCL0.65940.7922817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B18:07TPVPAGLCL0.02180.5936817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B82:02TPVPAGLCL0.01790.5602817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B35:43TPVPAGLCL0.00520.6624817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B15:08TPVPAGLCL0.00390.661817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B15:11TPVPAGLCL0.00350.6842817
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B67:01GTPVPAGLCL0.45080.8453717
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B55:04AGTPVPAGLCL0.92620.532617
NFE2L2-VMP1chr2178129259chr1757886156600HLA-B67:01AGTPVPAGLCL0.80150.7737617

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Potential FusionNeoAntigen Information of NFE2L2-VMP1 in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of NFE2L2-VMP1

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
252AGTPVPAGLCLPGQNFE2L2VMP1chr2178129259chr1757886156600
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
6655PGLPSQQGIGTAIGNFE2L2VMP1chr2178129259chr1757851114600

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of NFE2L2-VMP1

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B14:023BVN252AGTPVPAGLCLPGQ-6.12283-6.12283
HLA-A24:025HGA252AGTPVPAGLCLPGQ-7.36995-7.36995
HLA-B14:023BVN6655PGLPSQQGIGTAIG-7.15543-7.26883
HLA-B14:023BVN6655PGLPSQQGIGTAIG-4.77435-5.80965
HLA-B52:013W396655PGLPSQQGIGTAIG-6.80875-6.92215
HLA-B52:013W396655PGLPSQQGIGTAIG-4.20386-5.23916
HLA-A11:014UQ26655PGLPSQQGIGTAIG-7.5194-8.5547
HLA-A11:014UQ26655PGLPSQQGIGTAIG-6.9601-7.0735
HLA-A24:025HGA6655PGLPSQQGIGTAIG-7.52403-7.63743
HLA-A24:025HGA6655PGLPSQQGIGTAIG-5.82433-6.85963
HLA-B27:056PYJ6655PGLPSQQGIGTAIG-3.28285-4.31815
HLA-B44:053DX86655PGLPSQQGIGTAIG-5.91172-6.94702
HLA-B44:053DX86655PGLPSQQGIGTAIG-4.24346-4.35686

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Vaccine Design for the FusionNeoAntigens of NFE2L2-VMP1

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
NFE2L2-VMP1chr2178129259chr17578511141019SQQGIGTAITCCCAGCAGGGTATCGGTACAGCAATC
NFE2L2-VMP1chr2178129259chr1757851114819LPSQQGIGTAICTCCCGTCCCAGCAGGGTATCGGTACAGCAATC
NFE2L2-VMP1chr2178129259chr1757886156617AGTPVPAGLCLCCGGGACTCCCGTCCCAGCAGGACTTTGCCTCC
NFE2L2-VMP1chr2178129259chr1757886156717GTPVPAGLCLGGACTCCCGTCCCAGCAGGACTTTGCCTCC
NFE2L2-VMP1chr2178129259chr1757886156817TPVPAGLCLCTCCCGTCCCAGCAGGACTTTGCCTCC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of NFE2L2-VMP1

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample
STADNFE2L2-VMP1chr2178129259ENST00000397062chr1757851114ENST00000262291TCGA-VQ-A8PM
STADNFE2L2-VMP1chr2178129259ENST00000397062chr1757886156ENST00000262291TCGA-VQ-A8PM

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Potential target of CAR-T therapy development for NFE2L2-VMP1

check button Predicted 3D structure. We used RoseTTAFold.

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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneVMP1chr2:178129259chr17:57851114ENST00000262291512251_2710407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57851114ENST00000262291512274_2940407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57851114ENST00000262291512306_3260407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57851114ENST00000262291512364_3840407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57886156ENST00000262291612251_2710407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57886156ENST00000262291612274_2940407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57886156ENST00000262291612306_3260407.0TransmembraneHelical
TgeneVMP1chr2:178129259chr17:57886156ENST00000262291612364_3840407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57851115ENST00000262291512251_2710407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57851115ENST00000262291512274_2940407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57851115ENST00000262291512306_3260407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57851115ENST00000262291512364_3840407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57886157ENST00000262291612251_2710407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57886157ENST00000262291612274_2940407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57886157ENST00000262291612306_3260407.0TransmembraneHelical
TgeneVMP1chr2:178129260chr17:57886157ENST00000262291612364_3840407.0TransmembraneHelical

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to NFE2L2-VMP1

check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to NFE2L2-VMP1

check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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