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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:RTN4-DTNB

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: RTN4-DTNB
FusionPDB ID: 78568
FusionGDB2.0 ID: 78568
HgeneTgene
Gene symbol

RTN4

DTNB

Gene ID

57142

1838

Gene namereticulon 4dystrobrevin beta
SynonymsASY|NI220/250|NOGO|NSP|NSP-CL|Nbla00271|Nbla10545|RTN-X|RTN4-A|RTN4-B1|RTN4-B2|RTN4-C-
Cytomap

2p16.1

2p23.3

Type of geneprotein-codingprotein-coding
Descriptionreticulon-4Human NogoAMy043 proteinfoocenneurite growth inhibitor 220neurite outgrowth inhibitorneuroendocrine-specific protein C homologreticulon 5dystrobrevin betaDTN-Bbeta-dystrobrevin
Modification date2020032720200327
UniProtAcc.

Q96EV8

Main function of 5'-partner protein: FUNCTION: Component of the BLOC-1 complex, a complex that is required for normal biogenesis of lysosome-related organelles (LRO), such as platelet dense granules and melanosomes. In concert with the AP-3 complex, the BLOC-1 complex is required to target membrane protein cargos into vesicles assembled at cell bodies for delivery into neurites and nerve terminals. The BLOC-1 complex, in association with SNARE proteins, is also proposed to be involved in neurite extension. Associates with the BLOC-2 complex to facilitate the transport of TYRP1 independent of AP-3 function. Plays a role in synaptic vesicle trafficking and in neurotransmitter release. Plays a role in the regulation of cell surface exposure of DRD2. May play a role in actin cytoskeleton reorganization and neurite outgrowth. May modulate MAPK8 phosphorylation. Appears to promote neuronal transmission and viability through regulating the expression of SNAP25 and SYN1, modulating PI3-kinase-Akt signaling and influencing glutamatergic release. Regulates the expression of SYN1 through binding to its promoter. Modulates prefrontal cortical activity via the dopamine/D2 pathway. {ECO:0000269|PubMed:15345706, ECO:0000269|PubMed:16837549, ECO:0000269|PubMed:17182842, ECO:0000269|PubMed:17989303, ECO:0000269|PubMed:19094965, ECO:0000269|PubMed:20180862, ECO:0000269|PubMed:20921223}.
Ensembl transtripts involved in fusion geneENST idsENST00000317610, ENST00000337526, 
ENST00000354474, ENST00000357376, 
ENST00000357732, ENST00000394609, 
ENST00000394611, ENST00000402434, 
ENST00000404909, ENST00000405240, 
ENST00000486085, 		ENST00000472690, 
ENST00000288642, ENST00000404103, 
ENST00000405222, ENST00000406818, 
ENST00000407038, ENST00000407186, 
ENST00000407661, ENST00000496972, 
ENST00000545439, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score18 X 22 X 7=277214 X 13 X 9=1638
# samples 2715
** MAII scorelog2(27/2772*10)=-3.35989594508638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(15/1638*10)=-3.44890095114513
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: RTN4 [Title/Abstract] AND DTNB [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: RTN4 [Title/Abstract] AND DTNB [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)RTN4(55209651)-DTNB(25611230), # samples:2
Anticipated loss of major functional domain due to fusion event.RTN4-DTNB 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.
RTN4-DTNB 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.
RTN4-DTNB 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.
RTN4-DTNB 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.
RTN4-DTNB seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
RTN4-DTNB seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
RTN4-DTNB 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
HgeneRTN4

GO:0030517

negative regulation of axon extension

10667797

HgeneRTN4

GO:0071787

endoplasmic reticulum tubular network formation

24262037|25612671

HgeneRTN4

GO:1905552

positive regulation of protein localization to endoplasmic reticulum

27353365



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/chr2:55209651/chr2:25611230)
- 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 RTN4 (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 DTNB (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)
ENST00000394609RTN4chr255209651-ENST00000496972DTNBchr225611230-1350710329964211
ENST00000394609RTN4chr255209651-ENST00000405222DTNBchr225611230-1269710329928199
ENST00000394609RTN4chr255209651-ENST00000407661DTNBchr225611230-1305710329964211
ENST00000394609RTN4chr255209651-ENST00000406818DTNBchr225611230-13597103291018229
ENST00000394609RTN4chr255209651-ENST00000407038DTNBchr225611230-1269710329928199
ENST00000394609RTN4chr255209651-ENST00000404103DTNBchr225611230-1269710329928199
ENST00000394609RTN4chr255209651-ENST00000407186DTNBchr225611230-13447103291018229
ENST00000394609RTN4chr255209651-ENST00000288642DTNBchr225611230-1250710329928199
ENST00000394609RTN4chr255209651-ENST00000545439DTNBchr225611230-10867103291018229
ENST00000317610RTN4chr255209651-ENST00000496972DTNBchr225611230-178711472171401394
ENST00000317610RTN4chr255209651-ENST00000405222DTNBchr225611230-170611472171365382
ENST00000317610RTN4chr255209651-ENST00000407661DTNBchr225611230-174211472171401394
ENST00000317610RTN4chr255209651-ENST00000406818DTNBchr225611230-179611472171455412
ENST00000317610RTN4chr255209651-ENST00000407038DTNBchr225611230-170611472171365382
ENST00000317610RTN4chr255209651-ENST00000404103DTNBchr225611230-170611472171365382
ENST00000317610RTN4chr255209651-ENST00000407186DTNBchr225611230-178111472171455412
ENST00000317610RTN4chr255209651-ENST00000288642DTNBchr225611230-168711472171365382
ENST00000317610RTN4chr255209651-ENST00000545439DTNBchr225611230-152311472171455412
ENST00000357732RTN4chr255209651-ENST00000496972DTNBchr225611230-184412042171458413
ENST00000357732RTN4chr255209651-ENST00000405222DTNBchr225611230-176312042171422401
ENST00000357732RTN4chr255209651-ENST00000407661DTNBchr225611230-179912042171458413
ENST00000357732RTN4chr255209651-ENST00000406818DTNBchr225611230-185312042171512431
ENST00000357732RTN4chr255209651-ENST00000407038DTNBchr225611230-176312042171422401
ENST00000357732RTN4chr255209651-ENST00000404103DTNBchr225611230-176312042171422401
ENST00000357732RTN4chr255209651-ENST00000407186DTNBchr225611230-183812042171512431
ENST00000357732RTN4chr255209651-ENST00000288642DTNBchr225611230-174412042171422401
ENST00000357732RTN4chr255209651-ENST00000545439DTNBchr225611230-158012042171512431
ENST00000337526RTN4chr255209651-ENST00000496972DTNBchr225611230-4244360421738581213
ENST00000337526RTN4chr255209651-ENST00000405222DTNBchr225611230-4163360421738221201
ENST00000337526RTN4chr255209651-ENST00000407661DTNBchr225611230-4199360421738581213
ENST00000337526RTN4chr255209651-ENST00000406818DTNBchr225611230-4253360421739121231
ENST00000337526RTN4chr255209651-ENST00000407038DTNBchr225611230-4163360421738221201
ENST00000337526RTN4chr255209651-ENST00000404103DTNBchr225611230-4163360421738221201
ENST00000337526RTN4chr255209651-ENST00000407186DTNBchr225611230-4238360421739121231
ENST00000337526RTN4chr255209651-ENST00000288642DTNBchr225611230-4144360421738221201
ENST00000337526RTN4chr255209651-ENST00000545439DTNBchr225611230-3980360421739121231
ENST00000354474RTN4chr255209651-ENST00000496972DTNBchr225611230-3304266402918972
ENST00000354474RTN4chr255209651-ENST00000405222DTNBchr225611230-3223266402882960
ENST00000354474RTN4chr255209651-ENST00000407661DTNBchr225611230-3259266402918972
ENST00000354474RTN4chr255209651-ENST00000406818DTNBchr225611230-3313266402972990
ENST00000354474RTN4chr255209651-ENST00000407038DTNBchr225611230-3223266402882960
ENST00000354474RTN4chr255209651-ENST00000404103DTNBchr225611230-3223266402882960
ENST00000354474RTN4chr255209651-ENST00000407186DTNBchr225611230-3298266402972990
ENST00000354474RTN4chr255209651-ENST00000288642DTNBchr225611230-3204266402882960
ENST00000354474RTN4chr255209651-ENST00000545439DTNBchr225611230-3040266402972990
ENST00000402434RTN4chr255209651-ENST00000496972DTNBchr225611230-1535895491149366
ENST00000402434RTN4chr255209651-ENST00000405222DTNBchr225611230-1454895491113354
ENST00000402434RTN4chr255209651-ENST00000407661DTNBchr225611230-1490895491149366
ENST00000402434RTN4chr255209651-ENST00000406818DTNBchr225611230-1544895491203384
ENST00000402434RTN4chr255209651-ENST00000407038DTNBchr225611230-1454895491113354
ENST00000402434RTN4chr255209651-ENST00000404103DTNBchr225611230-1454895491113354
ENST00000402434RTN4chr255209651-ENST00000407186DTNBchr225611230-1529895491203384
ENST00000402434RTN4chr255209651-ENST00000288642DTNBchr225611230-1435895491113354
ENST00000402434RTN4chr255209651-ENST00000545439DTNBchr225611230-1271895491203384

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
ENST00000394609ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0017563090.9982437
ENST00000394609ENST00000405222RTN4chr255209651-DTNBchr225611230-0.0009645750.9990355
ENST00000394609ENST00000407661RTN4chr255209651-DTNBchr225611230-0.0014580850.99854195
ENST00000394609ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0008945940.9991054
ENST00000394609ENST00000407038RTN4chr255209651-DTNBchr225611230-0.0009645750.9990355
ENST00000394609ENST00000404103RTN4chr255209651-DTNBchr225611230-0.0009645750.9990355
ENST00000394609ENST00000407186RTN4chr255209651-DTNBchr225611230-0.0008217880.99917823
ENST00000394609ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0007940860.9992059
ENST00000394609ENST00000545439RTN4chr255209651-DTNBchr225611230-0.0006734480.9993266
ENST00000317610ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0045641480.9954359
ENST00000317610ENST00000405222RTN4chr255209651-DTNBchr225611230-0.002206890.9977931
ENST00000317610ENST00000407661RTN4chr255209651-DTNBchr225611230-0.0038259010.99617416
ENST00000317610ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0028133910.9971866
ENST00000317610ENST00000407038RTN4chr255209651-DTNBchr225611230-0.002206890.9977931
ENST00000317610ENST00000404103RTN4chr255209651-DTNBchr225611230-0.002206890.9977931
ENST00000317610ENST00000407186RTN4chr255209651-DTNBchr225611230-0.0023801140.9976199
ENST00000317610ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0016869340.99831307
ENST00000317610ENST00000545439RTN4chr255209651-DTNBchr225611230-0.0024500720.99754995
ENST00000357732ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0043305310.9956695
ENST00000357732ENST00000405222RTN4chr255209651-DTNBchr225611230-0.002099780.99790025
ENST00000357732ENST00000407661RTN4chr255209651-DTNBchr225611230-0.0037158380.9962842
ENST00000357732ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0028482450.99715173
ENST00000357732ENST00000407038RTN4chr255209651-DTNBchr225611230-0.002099780.99790025
ENST00000357732ENST00000404103RTN4chr255209651-DTNBchr225611230-0.002099780.99790025
ENST00000357732ENST00000407186RTN4chr255209651-DTNBchr225611230-0.0024408310.9975592
ENST00000357732ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0016678930.9983321
ENST00000357732ENST00000545439RTN4chr255209651-DTNBchr225611230-0.002457450.9975426
ENST00000337526ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0017527130.99824727
ENST00000337526ENST00000405222RTN4chr255209651-DTNBchr225611230-0.0029330880.9970669
ENST00000337526ENST00000407661RTN4chr255209651-DTNBchr225611230-0.001861020.998139
ENST00000337526ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0008211710.9991788
ENST00000337526ENST00000407038RTN4chr255209651-DTNBchr225611230-0.0029330880.9970669
ENST00000337526ENST00000404103RTN4chr255209651-DTNBchr225611230-0.0029330880.9970669
ENST00000337526ENST00000407186RTN4chr255209651-DTNBchr225611230-0.0008309990.999169
ENST00000337526ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0029801660.9970198
ENST00000337526ENST00000545439RTN4chr255209651-DTNBchr225611230-0.0007059250.99929404
ENST00000354474ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0011526470.99884737
ENST00000354474ENST00000405222RTN4chr255209651-DTNBchr225611230-0.0014741270.9985259
ENST00000354474ENST00000407661RTN4chr255209651-DTNBchr225611230-0.0012563250.9987437
ENST00000354474ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0013485770.99865144
ENST00000354474ENST00000407038RTN4chr255209651-DTNBchr225611230-0.0014741270.9985259
ENST00000354474ENST00000404103RTN4chr255209651-DTNBchr225611230-0.0014741270.9985259
ENST00000354474ENST00000407186RTN4chr255209651-DTNBchr225611230-0.001360030.99864
ENST00000354474ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0014834760.9985165
ENST00000354474ENST00000545439RTN4chr255209651-DTNBchr225611230-0.001201320.9987986
ENST00000402434ENST00000496972RTN4chr255209651-DTNBchr225611230-0.0042613860.9957386
ENST00000402434ENST00000405222RTN4chr255209651-DTNBchr225611230-0.0020768150.9979232
ENST00000402434ENST00000407661RTN4chr255209651-DTNBchr225611230-0.0035670380.9964329
ENST00000402434ENST00000406818RTN4chr255209651-DTNBchr225611230-0.0028821940.9971179
ENST00000402434ENST00000407038RTN4chr255209651-DTNBchr225611230-0.0020768150.9979232
ENST00000402434ENST00000404103RTN4chr255209651-DTNBchr225611230-0.0020768150.9979232
ENST00000402434ENST00000407186RTN4chr255209651-DTNBchr225611230-0.002337850.9976622
ENST00000402434ENST00000288642RTN4chr255209651-DTNBchr225611230-0.0015109880.998489
ENST00000402434ENST00000545439RTN4chr255209651-DTNBchr225611230-0.0023902850.99760973

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 RTN4-DTNB

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
RTN4chr255209651DTNBchr2256112301147308LRRLFLVDDLVDSLKAQATGSPHTSP
RTN4chr255209651DTNBchr2256112301204327LRRLFLVDDLVDSLKAQATGSPHTSP
RTN4chr255209651DTNBchr2256112302664886LRRLFLVDDLVDSLKAQATGSPHTSP
RTN4chr255209651DTNBchr22561123036041127LRRLFLVDDLVDSLKAQATGSPHTSP
RTN4chr255209651DTNBchr225611230710125LRRLFLVDDLVDSLKAQATGSPHTSP
RTN4chr255209651DTNBchr225611230895280LRRLFLVDDLVDSLKAQATGSPHTSP

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Potential FusionNeoAntigen Information of RTN4-DTNB 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.

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)

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Potential FusionNeoAntigen Information of RTN4-DTNB 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.
RTN4-DTNB_55209651_25611230.msa

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)
RTN4-DTNBchr255209651chr2256112301147DRB1-0102DDLVDSLKAQATGSP722
RTN4-DTNBchr255209651chr2256112301147DRB1-0102VDDLVDSLKAQATGS621
RTN4-DTNBchr255209651chr2256112301147DRB1-0123DDLVDSLKAQATGSP722
RTN4-DTNBchr255209651chr2256112301147DRB1-0123VDDLVDSLKAQATGS621
RTN4-DTNBchr255209651chr2256112301147DRB1-0411LRRLFLVDDLVDSLK015
RTN4-DTNBchr255209651chr2256112301147DRB1-0491LRRLFLVDDLVDSLK015
RTN4-DTNBchr255209651chr2256112301147DRB1-1002DDLVDSLKAQATGSP722

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Fusion breakpoint peptide structures of RTN4-DTNB

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.

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of RTN4-DTNB

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

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Vaccine Design for the FusionNeoAntigens of RTN4-DTNB

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

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
RTN4-DTNBchr255209651chr225611230015LRRLFLVDDLVDSLKCGCCTCTTCTTAGTTGATGATTTAGTTGATTCTCTGAAGGCTCAG
RTN4-DTNBchr255209651chr225611230621VDDLVDSLKAQATGSGATTTAGTTGATTCTCTGAAGGCTCAGGCCACAGGGTCACCACAT
RTN4-DTNBchr255209651chr225611230722DDLVDSLKAQATGSPTTAGTTGATTCTCTGAAGGCTCAGGCCACAGGGTCACCACATACA

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Information of the samples that have these potential fusion neoantigens of RTN4-DTNB

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

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Potential target of CAR-T therapy development for RTN4-DTNB

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
HgeneRTN4chr2:55209651chr2:25611230ENST00000337526-591019_103911201193.0TransmembraneHelical

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 RTN4-DTNB

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 RTN4-DTNB

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