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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:CTNND1-SMTNL1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: CTNND1-SMTNL1
FusionPDB ID: 20376
FusionGDB2.0 ID: 20376
HgeneTgene
Gene symbol

CTNND1

SMTNL1

Gene ID

100528016

219537

Gene nameTMX2-CTNND1 readthrough (NMD candidate)smoothelin like 1
SynonymsCAS|CTNND1|p120(cas)|p120(ctn)CHASM
Cytomap

11q12.1

11q12.1

Type of genencRNAprotein-coding
DescriptionCadherin-associated Src substrateCatenin delta-1TMX2-CTNND1 readthrough (non-protein coding)p120 cateninsmoothelin-like protein 1calponin homology-associated smooth muscle protein
Modification date2020031320200313
UniProtAcc

O60716

Main function of 5'-partner protein: FUNCTION: Key regulator of cell-cell adhesion that associates with and regulates the cell adhesion properties of both C-, E- and N-cadherins, being critical for their surface stability (PubMed:14610055, PubMed:20371349). Beside cell-cell adhesion, regulates gene transcription through several transcription factors including ZBTB33/Kaiso2 and GLIS2, and the activity of Rho family GTPases and downstream cytoskeletal dynamics (PubMed:10207085, PubMed:20371349). Implicated both in cell transformation by SRC and in ligand-induced receptor signaling through the EGF, PDGF, CSF-1 and ERBB2 receptors (PubMed:17344476). {ECO:0000269|PubMed:10207085, ECO:0000269|PubMed:14610055, ECO:0000269|PubMed:17344476, ECO:0000269|PubMed:20371349}.		.
Ensembl transtripts involved in fusion geneENST idsENST00000358694, ENST00000360682, 
ENST00000361332, ENST00000361391, 
ENST00000361796, ENST00000399039, 
ENST00000399050, ENST00000415361, 
ENST00000426142, ENST00000428599, 
ENST00000524630, ENST00000525902, 
ENST00000526357, ENST00000526772, 
ENST00000526938, ENST00000527467, 
ENST00000528232, ENST00000528621, 
ENST00000529526, ENST00000529873, 
ENST00000529919, ENST00000529986, 
ENST00000530094, ENST00000530748, 
ENST00000531014, ENST00000532245, 
ENST00000532463, ENST00000532649, 
ENST00000532787, ENST00000532844, 
ENST00000533667, ENST00000534579, 
ENST00000457912, ENST00000527972, 
ENST00000399154, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score29 X 18 X 15=78302 X 4 X 2=16
# samples 353
** MAII scorelog2(35/7830*10)=-4.48358548034607
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/16*10)=0.906890595608518
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Fusion gene context

PubMed: CTNND1 [Title/Abstract] AND SMTNL1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: CTNND1 [Title/Abstract] AND SMTNL1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)CTNND1(57577695)-SMTNL1(57311097), # samples:1
CTNND1(57577695)-SMTNL1(57310114), # samples:1
Anticipated loss of major functional domain due to fusion event.CTNND1-SMTNL1 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.
CTNND1-SMTNL1 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.
CTNND1-SMTNL1 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.
CTNND1-SMTNL1 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.
CTNND1-SMTNL1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
CTNND1-SMTNL1 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor 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


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/chr11:57577695/chr11:57311097)
- 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 CTNND1 (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 SMTNL1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


Top

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)
ENST00000524630CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4321304551337971094
ENST00000524630CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3960304551337971094
ENST00000524630CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4321304551337971094
ENST00000529919CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4157288133136331100
ENST00000529919CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3796288133136331100
ENST00000529919CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4157288133136331100
ENST00000399039CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4157288133136331100
ENST00000399039CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3796288133136331100
ENST00000399039CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4157288133136331100
ENST00000360682CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4397312157138731100
ENST00000360682CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+4036312157138731100
ENST00000360682CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4397312157138731100
ENST00000361796CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4379310357138551094
ENST00000361796CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+4018310357138551094
ENST00000361796CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4379310357138551094
ENST00000361391CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4344306853638201094
ENST00000361391CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3983306853638201094
ENST00000361391CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4344306853638201094
ENST00000530094CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+3863258730133391012
ENST00000530094CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3502258730133391012
ENST00000530094CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+3863258730133391012
ENST00000428599CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4152287634436281094
ENST00000428599CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3791287634436281094
ENST00000428599CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4152287634436281094
ENST00000361332CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4344306853638201094
ENST00000361332CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3983306853638201094
ENST00000361332CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4344306853638201094
ENST00000527467CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+31201844682596842
ENST00000527467CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+27591844682596842
ENST00000527467CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+31201844682596842
ENST00000415361CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+3881260530133571018
ENST00000415361CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3520260530133571018
ENST00000415361CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+3881260530133571018
ENST00000532245CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+379125152863267993
ENST00000532245CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+343025152863267993
ENST00000532245CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+379125152863267993
ENST00000532463CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+388526096833611097
ENST00000532463CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+352426096833611097
ENST00000532463CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+388526096833611097
ENST00000528232CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+3881260530133571018
ENST00000528232CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3520260530133571018
ENST00000528232CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+3881260530133571018
ENST00000529986CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+3863258730133391012
ENST00000529986CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3502258730133391012
ENST00000529986CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+3863258730133391012
ENST00000531014CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+31021826682578836
ENST00000531014CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+27411826682578836
ENST00000531014CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+31021826682578836
ENST00000358694CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4271299546337471094
ENST00000358694CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3910299546337471094
ENST00000358694CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4271299546337471094
ENST00000526772CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+31021826682578836
ENST00000526772CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+27411826682578836
ENST00000526772CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+31021826682578836
ENST00000532787CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+3863258730133391012
ENST00000532787CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3502258730133391012
ENST00000532787CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+3863258730133391012
ENST00000533667CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+31021826682578836
ENST00000533667CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+27411826682578836
ENST00000533667CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+31021826682578836
ENST00000529873CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4043276727135191082
ENST00000529873CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3682276727135191082
ENST00000529873CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4043276727135191082
ENST00000525902CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+31201844682596842
ENST00000525902CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+27591844682596842
ENST00000525902CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+31201844682596842
ENST00000529526CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4235295946337111082
ENST00000529526CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3874295946337111082
ENST00000529526CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4235295946337111082
ENST00000532649CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4162288639036381082
ENST00000532649CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3801288639036381082
ENST00000532649CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4162288639036381082
ENST00000426142CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+393626606834121114
ENST00000426142CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+357526606834121114
ENST00000426142CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+393626606834121114
ENST00000532844CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4061278527135371088
ENST00000532844CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3700278527135371088
ENST00000532844CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4061278527135371088
ENST00000528621CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4043276727135191082
ENST00000528621CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3682276727135191082
ENST00000528621CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4043276727135191082
ENST00000399050CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4362308653638381100
ENST00000399050CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+4001308653638381100
ENST00000399050CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4362308653638381100
ENST00000526357CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4043276727135191082
ENST00000526357CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3682276727135191082
ENST00000526357CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4043276727135191082
ENST00000530748CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4061278527135371088
ENST00000530748CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3700278527135371088
ENST00000530748CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4061278527135371088
ENST00000534579CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+416028846436361190
ENST00000534579CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+379928846436361190
ENST00000534579CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+416028846436361190
ENST00000526938CTNND1chr1157577695+ENST00000457912SMTNL1chr1157311097+4149287332336251100
ENST00000526938CTNND1chr1157577695+ENST00000527972SMTNL1chr1157311097+3788287332336251100
ENST00000526938CTNND1chr1157577695+ENST00000399154SMTNL1chr1157311097+4149287332336251100
ENST00000524630CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4942304551344181301
ENST00000529919CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4778288133142541307
ENST00000399039CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4778288133142541307
ENST00000360682CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+5018312157144941307
ENST00000361796CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+5000310357144761301
ENST00000361391CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4965306853644411301
ENST00000530094CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4484258730139601219
ENST00000428599CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4773287634442491301
ENST00000361332CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4965306853644411301
ENST00000527467CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+374118446832171049
ENST00000415361CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4502260530139781225
ENST00000532245CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4412251528638881200
ENST00000532463CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+450626096839821304
ENST00000528232CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4502260530139781225
ENST00000529986CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4484258730139601219
ENST00000531014CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+372318266831991043
ENST00000358694CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4892299546343681301
ENST00000526772CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+372318266831991043
ENST00000532787CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4484258730139601219
ENST00000533667CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+372318266831991043
ENST00000529873CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4664276727141401289
ENST00000525902CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+374118446832171049
ENST00000529526CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4856295946343321289
ENST00000532649CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4783288639042591289
ENST00000426142CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+455726606840331321
ENST00000532844CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4682278527141581295
ENST00000528621CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4664276727141401289
ENST00000399050CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4983308653644591307
ENST00000526357CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4664276727141401289
ENST00000530748CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4682278527141581295
ENST00000534579CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+478128846442571397
ENST00000526938CTNND1chr1157577695+ENST00000399154SMTNL1chr1157310114+4770287332342461307

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
ENST00000524630ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0015176670.9984824
ENST00000524630ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0024887610.99751127
ENST00000524630ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0015176670.9984824
ENST00000529919ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010866160.9989134
ENST00000529919ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019084020.99809164
ENST00000529919ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010866160.9989134
ENST00000399039ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010866160.9989134
ENST00000399039ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019084020.99809164
ENST00000399039ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010866160.9989134
ENST00000360682ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010474170.9989525
ENST00000360682ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0017069950.998293
ENST00000360682ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010474170.9989525
ENST00000361796ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011269150.99887305
ENST00000361796ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.001872190.99812776
ENST00000361796ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011269150.99887305
ENST00000361391ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010707460.9989292
ENST00000361391ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0017805390.99821943
ENST00000361391ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010707460.9989292
ENST00000530094ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000530094ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020024090.9979976
ENST00000530094ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000428599ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011256170.99887437
ENST00000428599ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019321010.9980679
ENST00000428599ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011256170.99887437
ENST00000361332ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010707460.9989292
ENST00000361332ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0017805390.99821943
ENST00000361332ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010707460.9989292
ENST00000527467ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.00206010.9979399
ENST00000527467ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0040681130.9959319
ENST00000527467ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.00206010.9979399
ENST00000415361ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012281390.99877185
ENST00000415361ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020670270.99793303
ENST00000415361ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012281390.99877185
ENST00000532245ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010669260.998933
ENST00000532245ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0018639170.99813604
ENST00000532245ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010669260.998933
ENST00000532463ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010697050.9989303
ENST00000532463ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.001836030.998164
ENST00000532463ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010697050.9989303
ENST00000528232ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012281390.99877185
ENST00000528232ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020670270.99793303
ENST00000528232ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012281390.99877185
ENST00000529986ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000529986ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020024090.9979976
ENST00000529986ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000531014ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000531014ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0046157090.9953843
ENST00000531014ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000358694ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011716910.99882835
ENST00000358694ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019591830.99804085
ENST00000358694ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011716910.99882835
ENST00000526772ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000526772ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0046157090.9953843
ENST00000526772ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000532787ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000532787ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020024090.9979976
ENST00000532787ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011672310.99883276
ENST00000533667ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000533667ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0046157090.9953843
ENST00000533667ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0023462090.9976538
ENST00000529873ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000529873ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0021810360.99781895
ENST00000529873ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000525902ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.00206010.9979399
ENST00000525902ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0040681130.9959319
ENST00000525902ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.00206010.9979399
ENST00000529526ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011949860.99880505
ENST00000529526ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0020215960.9979784
ENST00000529526ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011949860.99880505
ENST00000532649ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0013114070.99868864
ENST00000532649ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0022191380.99778086
ENST00000532649ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0013114070.99868864
ENST00000426142ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.001067970.99893206
ENST00000426142ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0018308580.99816906
ENST00000426142ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.001067970.99893206
ENST00000532844ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011654780.99883455
ENST00000532844ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019907680.99800926
ENST00000532844ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011654780.99883455
ENST00000528621ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000528621ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0021810360.99781895
ENST00000528621ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000399050ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0009935460.99900645
ENST00000399050ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0016263630.9983736
ENST00000399050ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0009935460.99900645
ENST00000526357ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000526357ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0021810360.99781895
ENST00000526357ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012617020.99873835
ENST00000530748ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0011654780.99883455
ENST00000530748ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0019907680.99800926
ENST00000530748ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0011654780.99883455
ENST00000534579ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0012799780.99872005
ENST00000534579ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0021648470.9978352
ENST00000534579ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0012799780.99872005
ENST00000526938ENST00000457912CTNND1chr1157577695+SMTNL1chr1157311097+0.0010068850.9989931
ENST00000526938ENST00000527972CTNND1chr1157577695+SMTNL1chr1157311097+0.0017141460.99828583
ENST00000526938ENST00000399154CTNND1chr1157577695+SMTNL1chr1157311097+0.0010068850.9989931
ENST00000524630ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0018688550.9981312
ENST00000529919ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0030379710.996962
ENST00000399039ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0030379710.996962
ENST00000360682ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0030588550.99694115
ENST00000361796ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014884890.9985115
ENST00000361391ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014406040.9985594
ENST00000530094ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014173180.9985827
ENST00000428599ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014882530.99851173
ENST00000361332ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014406040.9985594
ENST00000527467ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016155440.9983845
ENST00000415361ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0029132110.9970868
ENST00000532245ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0013318930.9986681
ENST00000532463ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0013444050.99865556
ENST00000528232ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0029132110.9970868
ENST00000529986ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014173180.9985827
ENST00000531014ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0015594360.99844056
ENST00000358694ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0015371550.9984629
ENST00000526772ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0015594360.99844056
ENST00000532787ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0014173180.9985827
ENST00000533667ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0015594360.99844056
ENST00000529873ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016174910.99838257
ENST00000525902ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016155440.9983845
ENST00000529526ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0015672620.9984327
ENST00000532649ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016769620.998323
ENST00000426142ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0013384510.9986615
ENST00000532844ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0032204510.9967796
ENST00000528621ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016174910.99838257
ENST00000399050ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0029441130.9970559
ENST00000526357ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0016174910.99838257
ENST00000530748ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.0032204510.9967796
ENST00000534579ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.001646040.99835396
ENST00000526938ENST00000399154CTNND1chr1157577695+SMTNL1chr1157310114+0.002887790.99711215

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 CTNND1-SMTNL1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
CTNND1chr1157577695SMTNL1chr11573101141826586PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101141844592PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142515743PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142587762PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142605768PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142609847PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142660864PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142767832PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142785838PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142873850PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142876844PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142881850PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142884940PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142886832PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142959832PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101142995844PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101143045844PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101143068844PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101143086850PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101143103844PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573101143121850PLEKEGWKKSDFQMEQKEGKLSEDGT
CTNND1chr1157577695SMTNL1chr11573110971826584RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110971844590RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972515741RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972587760RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972605766RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972609845RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972660862RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972767830RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972785836RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972873848RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972876842RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972881848RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972884938RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972886830RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972959830RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110972995842RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110973045842RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110973068842RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110973086848RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110973103842RKPLEKEGWKKSDFQEPGSPSEEQEQ
CTNND1chr1157577695SMTNL1chr11573110973121848RKPLEKEGWKKSDFQEPGSPSEEQEQ

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Potential FusionNeoAntigen Information of CTNND1-SMTNL1 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.
CTNND1-SMTNL1_57577695_57310114.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)
CTNND1-SMTNL1chr1157577695chr11573101142995HLA-B13:01FQMEQKEGKL0.77310.92521121
CTNND1-SMTNL1chr1157577695chr11573101142995HLA-B15:73FQMEQKEGKL0.98220.98291121
CTNND1-SMTNL1chr1157577695chr11573101142995HLA-B15:30FQMEQKEGKL0.9630.96421121

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Potential FusionNeoAntigen Information of CTNND1-SMTNL1 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.
CTNND1-SMTNL1_57577695_57310114.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)
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1173KSDFQMEQKEGKLSE823
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1179KSDFQMEQKEGKLSE823
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1179KKSDFQMEQKEGKLS722
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1385KSDFQMEQKEGKLSE823
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1386KSDFQMEQKEGKLSE823
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1419KSDFQMEQKEGKLSE823
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1419KKSDFQMEQKEGKLS722
CTNND1-SMTNL1chr1157577695chr11573101142995DRB1-1430KSDFQMEQKEGKLSE823

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Fusion breakpoint peptide structures of CTNND1-SMTNL1

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
10490WKKSDFQMEQKEGKCTNND1SMTNL1chr1157577695chr11573101142995

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of CTNND1-SMTNL1

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-B14:023BVN10490WKKSDFQMEQKEGK-7.37157-7.48337
HLA-B14:023BVN10490WKKSDFQMEQKEGK-5.75216-6.79526
HLA-B52:013W3910490WKKSDFQMEQKEGK-7.36854-7.48034
HLA-B52:013W3910490WKKSDFQMEQKEGK-4.42371-5.46681
HLA-A11:014UQ210490WKKSDFQMEQKEGK-8.60667-9.64977
HLA-A11:014UQ210490WKKSDFQMEQKEGK-5.54504-5.65684
HLA-A24:025HGA10490WKKSDFQMEQKEGK-7.65859-7.77039
HLA-A24:025HGA10490WKKSDFQMEQKEGK-6.03094-7.07404
HLA-B44:053DX810490WKKSDFQMEQKEGK-5.82315-5.93495
HLA-B44:053DX810490WKKSDFQMEQKEGK-2.98805-4.03115

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Vaccine Design for the FusionNeoAntigens of CTNND1-SMTNL1

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
CTNND1-SMTNL1chr1157577695chr11573101141121FQMEQKEGKLTTTCAGATGGAGCAGAAGGAAGGGAAGCTC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
CTNND1-SMTNL1chr1157577695chr1157310114722KKSDFQMEQKEGKLSAAGAAATCAGACTTTCAGATGGAGCAGAAGGAAGGGAAGCTCTCT
CTNND1-SMTNL1chr1157577695chr1157310114823KSDFQMEQKEGKLSEAAATCAGACTTTCAGATGGAGCAGAAGGAAGGGAAGCTCTCTGAG

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Information of the samples that have these potential fusion neoantigens of CTNND1-SMTNL1

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
LIHCCTNND1-SMTNL1chr1157577695ENST00000358694chr1157310114ENST00000399154TCGA-XR-A8TG-01A

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Potential target of CAR-T therapy development for CTNND1-SMTNL1

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

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 CTNND1-SMTNL1

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 CTNND1-SMTNL1

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