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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:CDH11-PRC1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: CDH11-PRC1
FusionPDB ID: 14981
FusionGDB2.0 ID: 14981
HgeneTgene
Gene symbol

CDH11

PRC1

Gene ID

1009

9055

Gene namecadherin 11protein regulator of cytokinesis 1
SynonymsCAD11|CDHOB|ESWS|OB|OSF-4ASE1
Cytomap

16q21

15q26.1

Type of geneprotein-codingprotein-coding
Descriptioncadherin-11cadherin 11, type 2, OB-cadherin (osteoblast)protein regulator of cytokinesis 1anaphase spindle elongation 1 homologprotein regulating cytokinesis 1
Modification date2020031320200313
UniProtAcc

P55287

Main function of 5'-partner protein: FUNCTION: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types.		.
Ensembl transtripts involved in fusion geneENST idsENST00000268603, ENST00000394156, 
ENST00000566827, ENST00000569624, 
ENST00000556129, ENST00000361188, 
ENST00000361919, ENST00000394249, 
ENST00000442656, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score7 X 9 X 5=3153 X 4 X 2=24
# samples 134
** MAII scorelog2(13/315*10)=-1.27684020535882
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/24*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Fusion gene context

PubMed: CDH11 [Title/Abstract] AND PRC1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: CDH11 [Title/Abstract] AND PRC1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)CDH11(65005482)-PRC1(91512853), # samples:3
Anticipated loss of major functional domain due to fusion event.CDH11-PRC1 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.
CDH11-PRC1 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.
CDH11-PRC1 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.
CDH11-PRC1 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.
CDH11-PRC1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
CDH11-PRC1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
CDH11-PRC1 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
CDH11-PRC1 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
TgenePRC1

GO:0032465

regulation of cytokinesis

17351640



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/chr16:65005482/chr15:91512853)
- 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 CDH11 (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 PRC1 (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)
ENST00000394156CDH11chr1665005482-ENST00000394249PRC1chr1591512853-347820964542241595
ENST00000394156CDH11chr1665005482-ENST00000361919PRC1chr1591512853-335420964542277607
ENST00000394156CDH11chr1665005482-ENST00000361188PRC1chr1591512853-339920964542241595
ENST00000394156CDH11chr1665005482-ENST00000442656PRC1chr1591512853-259920964542277607
ENST00000268603CDH11chr1665005482-ENST00000394249PRC1chr1591512853-364022586162403595
ENST00000268603CDH11chr1665005482-ENST00000361919PRC1chr1591512853-351622586162439607
ENST00000268603CDH11chr1665005482-ENST00000361188PRC1chr1591512853-356122586162403595
ENST00000268603CDH11chr1665005482-ENST00000442656PRC1chr1591512853-276122586162439607
ENST00000394156CDH11chr1665005481-ENST00000394249PRC1chr1591512853-347820964542241595
ENST00000394156CDH11chr1665005481-ENST00000361919PRC1chr1591512853-335420964542277607
ENST00000394156CDH11chr1665005481-ENST00000361188PRC1chr1591512853-339920964542241595
ENST00000394156CDH11chr1665005481-ENST00000442656PRC1chr1591512853-259920964542277607
ENST00000268603CDH11chr1665005481-ENST00000394249PRC1chr1591512853-364022586162403595
ENST00000268603CDH11chr1665005481-ENST00000361919PRC1chr1591512853-351622586162439607
ENST00000268603CDH11chr1665005481-ENST00000361188PRC1chr1591512853-356122586162403595
ENST00000268603CDH11chr1665005481-ENST00000442656PRC1chr1591512853-276122586162439607
ENST00000394156CDH11chr1665005481-ENST00000394249PRC1chr1591512852-347820964542241595
ENST00000394156CDH11chr1665005481-ENST00000361919PRC1chr1591512852-335420964542277607
ENST00000394156CDH11chr1665005481-ENST00000361188PRC1chr1591512852-339920964542241595
ENST00000394156CDH11chr1665005481-ENST00000442656PRC1chr1591512852-259920964542277607
ENST00000268603CDH11chr1665005481-ENST00000394249PRC1chr1591512852-364022586162403595
ENST00000268603CDH11chr1665005481-ENST00000361919PRC1chr1591512852-351622586162439607
ENST00000268603CDH11chr1665005481-ENST00000361188PRC1chr1591512852-356122586162403595
ENST00000268603CDH11chr1665005481-ENST00000442656PRC1chr1591512852-276122586162439607

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
ENST00000394156ENST00000394249CDH11chr1665005482-PRC1chr1591512853-0.0007239570.9992761
ENST00000394156ENST00000361919CDH11chr1665005482-PRC1chr1591512853-0.0006741430.9993259
ENST00000394156ENST00000361188CDH11chr1665005482-PRC1chr1591512853-0.0008255120.9991744
ENST00000394156ENST00000442656CDH11chr1665005482-PRC1chr1591512853-0.0016843350.9983157
ENST00000268603ENST00000394249CDH11chr1665005482-PRC1chr1591512853-0.0008685360.9991315
ENST00000268603ENST00000361919CDH11chr1665005482-PRC1chr1591512853-0.0008122850.99918777
ENST00000268603ENST00000361188CDH11chr1665005482-PRC1chr1591512853-0.0009866810.9990133
ENST00000268603ENST00000442656CDH11chr1665005482-PRC1chr1591512853-0.0019181910.9980818
ENST00000394156ENST00000394249CDH11chr1665005481-PRC1chr1591512853-0.0007239570.9992761
ENST00000394156ENST00000361919CDH11chr1665005481-PRC1chr1591512853-0.0006741430.9993259
ENST00000394156ENST00000361188CDH11chr1665005481-PRC1chr1591512853-0.0008255120.9991744
ENST00000394156ENST00000442656CDH11chr1665005481-PRC1chr1591512853-0.0016843350.9983157
ENST00000268603ENST00000394249CDH11chr1665005481-PRC1chr1591512853-0.0008685360.9991315
ENST00000268603ENST00000361919CDH11chr1665005481-PRC1chr1591512853-0.0008122850.99918777
ENST00000268603ENST00000361188CDH11chr1665005481-PRC1chr1591512853-0.0009866810.9990133
ENST00000268603ENST00000442656CDH11chr1665005481-PRC1chr1591512853-0.0019181910.9980818
ENST00000394156ENST00000394249CDH11chr1665005481-PRC1chr1591512852-0.0007239570.9992761
ENST00000394156ENST00000361919CDH11chr1665005481-PRC1chr1591512852-0.0006741430.9993259
ENST00000394156ENST00000361188CDH11chr1665005481-PRC1chr1591512852-0.0008255120.9991744
ENST00000394156ENST00000442656CDH11chr1665005481-PRC1chr1591512852-0.0016843350.9983157
ENST00000268603ENST00000394249CDH11chr1665005481-PRC1chr1591512852-0.0008685360.9991315
ENST00000268603ENST00000361919CDH11chr1665005481-PRC1chr1591512852-0.0008122850.99918777
ENST00000268603ENST00000361188CDH11chr1665005481-PRC1chr1591512852-0.0009866810.9990133
ENST00000268603ENST00000442656CDH11chr1665005481-PRC1chr1591512852-0.0019181910.9980818

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 CDH11-PRC1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
CDH11chr1665005481PRC1chr15915128522096547IIHNPNFTVRDNRASRCFHLFREENT
CDH11chr1665005481PRC1chr15915128522258547IIHNPNFTVRDNRASRCFHLFREENT
CDH11chr1665005481PRC1chr15915128532096547IIHNPNFTVRDNRASRCFHLFREENT
CDH11chr1665005481PRC1chr15915128532258547IIHNPNFTVRDNRASRCFHLFREENT
CDH11chr1665005482PRC1chr15915128532096547IIHNPNFTVRDNRASRCFHLFREENT
CDH11chr1665005482PRC1chr15915128532258547IIHNPNFTVRDNRASRCFHLFREENT

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Potential FusionNeoAntigen Information of CDH11-PRC1 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.
CDH11-PRC1_65005481_91512852.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)
CDH11-PRC1chr1665005481chr15915128522258HLA-B57:01RASRCFHLF0.99890.97341221
CDH11-PRC1chr1665005481chr15915128522258HLA-B27:07NRASRCFHL0.99840.50461120
CDH11-PRC1chr1665005481chr15915128522258HLA-B39:24NRASRCFHL0.99820.5361120
CDH11-PRC1chr1665005481chr15915128522258HLA-B58:02RASRCFHLF0.99760.94921221
CDH11-PRC1chr1665005481chr15915128522258HLA-B14:02NRASRCFHL0.99640.88941120
CDH11-PRC1chr1665005481chr15915128522258HLA-B14:01NRASRCFHL0.99640.88941120
CDH11-PRC1chr1665005481chr15915128522258HLA-B58:01RASRCFHLF0.99520.92081221
CDH11-PRC1chr1665005481chr15915128522258HLA-B15:17RASRCFHLF0.99330.95571221
CDH11-PRC1chr1665005481chr15915128522258HLA-B57:03RASRCFHLF0.99330.98921221
CDH11-PRC1chr1665005481chr15915128522258HLA-B39:01NRASRCFHL0.99310.94361120
CDH11-PRC1chr1665005481chr15915128522258HLA-B15:16RASRCFHLF0.98950.90711221
CDH11-PRC1chr1665005481chr15915128522258HLA-A32:13RASRCFHLF0.97240.97961221
CDH11-PRC1chr1665005481chr15915128522258HLA-A24:15RASRCFHLF0.96080.53841221
CDH11-PRC1chr1665005481chr15915128522258HLA-A31:02TVRDNRASR0.77430.7152716
CDH11-PRC1chr1665005481chr15915128522258HLA-A31:06TVRDNRASR0.70830.5787716
CDH11-PRC1chr1665005481chr15915128522258HLA-A66:01FTVRDNRASR0.95550.503616
CDH11-PRC1chr1665005481chr15915128522258HLA-A26:03FTVRDNRASR0.83370.5532616
CDH11-PRC1chr1665005481chr15915128522258HLA-A33:05NFTVRDNRASR0.99080.5199516
CDH11-PRC1chr1665005481chr15915128522258HLA-A33:01NFTVRDNRASR0.99080.5199516
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:95NRASRCFHL0.99610.69721120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:05NRASRCFHL0.99540.96571120
CDH11-PRC1chr1665005481chr15915128522258HLA-B39:12NRASRCFHL0.99130.94711120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:27NRASRCFHL0.99120.95651120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:29NRASRCFHL0.98360.92281120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:13NRASRCFHL0.95690.95931120
CDH11-PRC1chr1665005481chr15915128522258HLA-A31:01TVRDNRASR0.95430.6853716
CDH11-PRC1chr1665005481chr15915128522258HLA-C15:04RASRCFHLF0.95240.95651221
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:46NRASRCFHL0.93870.91321120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:19NRASRCFHL0.84370.84891120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:80NRASRCFHL0.8060.9611120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:67NRASRCFHL0.8060.9611120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:10NRASRCFHL0.80510.96981120
CDH11-PRC1chr1665005481chr15915128522258HLA-B14:03NRASRCFHL0.44780.93561120
CDH11-PRC1chr1665005481chr15915128522258HLA-C12:16NRASRCFHL0.10020.97971120
CDH11-PRC1chr1665005481chr15915128522258HLA-A31:01RASRCFHLFR0.99670.50561222
CDH11-PRC1chr1665005481chr15915128522258HLA-B27:06NRASRCFHL0.9990.77381120
CDH11-PRC1chr1665005481chr15915128522258HLA-B57:10RASRCFHLF0.99890.97341221
CDH11-PRC1chr1665005481chr15915128522258HLA-B27:09NRASRCFHL0.99790.7761120
CDH11-PRC1chr1665005481chr15915128522258HLA-B57:04RASRCFHLF0.99720.86791221
CDH11-PRC1chr1665005481chr15915128522258HLA-B58:06RASRCFHLF0.99710.89381221
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:01NRASRCFHL0.9960.69721120
CDH11-PRC1chr1665005481chr15915128522258HLA-B39:31NRASRCFHL0.9930.94481120
CDH11-PRC1chr1665005481chr15915128522258HLA-A32:01RASRCFHLF0.98990.9881221
CDH11-PRC1chr1665005481chr15915128522258HLA-B57:02RASRCFHLF0.97810.97521221
CDH11-PRC1chr1665005481chr15915128522258HLA-A30:01TVRDNRASR0.9770.844716
CDH11-PRC1chr1665005481chr15915128522258HLA-C15:09RASRCFHLF0.95240.95651221
CDH11-PRC1chr1665005481chr15915128522258HLA-C06:08NRASRCFHL0.95180.99291120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:04NRASRCFHL0.820.95381120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:02NRASRCFHL0.8060.9611120
CDH11-PRC1chr1665005481chr15915128522258HLA-C07:22NRASRCFHL0.6470.7331120
CDH11-PRC1chr1665005481chr15915128522258HLA-C16:02RASRCFHLF0.62050.99751221
CDH11-PRC1chr1665005481chr15915128522258HLA-C06:06NRASRCFHL0.220.99461120
CDH11-PRC1chr1665005481chr15915128522258HLA-C06:02NRASRCFHL0.09670.9951120
CDH11-PRC1chr1665005481chr15915128522258HLA-C06:17NRASRCFHL0.09670.9951120

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Potential FusionNeoAntigen Information of CDH11-PRC1 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.
CDH11-PRC1_65005481_91512852.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)
CDH11-PRC1chr1665005481chr15915128522258DRB1-1367IHNPNFTVRDNRASR116
CDH11-PRC1chr1665005481chr15915128522258DRB1-1367NPNFTVRDNRASRCF318
CDH11-PRC1chr1665005481chr15915128522258DRB1-1367HNPNFTVRDNRASRC217

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Fusion breakpoint peptide structures of CDH11-PRC1

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
2596FTVRDNRASRCFHLCDH11PRC1chr1665005481chr15915128522258

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of CDH11-PRC1

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-B14:023BVN2596FTVRDNRASRCFHL-7.9962-8.1096
HLA-B14:023BVN2596FTVRDNRASRCFHL-5.70842-6.74372
HLA-B52:013W392596FTVRDNRASRCFHL-6.83737-6.95077
HLA-B52:013W392596FTVRDNRASRCFHL-4.4836-5.5189
HLA-A11:014UQ22596FTVRDNRASRCFHL-10.0067-10.1201
HLA-A11:014UQ22596FTVRDNRASRCFHL-9.03915-10.0745
HLA-A24:025HGA2596FTVRDNRASRCFHL-6.56204-6.67544
HLA-A24:025HGA2596FTVRDNRASRCFHL-5.42271-6.45801
HLA-B44:053DX82596FTVRDNRASRCFHL-7.85648-8.89178
HLA-B44:053DX82596FTVRDNRASRCFHL-5.3978-5.5112
HLA-A02:016TDR2596FTVRDNRASRCFHL-3.37154-4.40684

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Vaccine Design for the FusionNeoAntigens of CDH11-PRC1

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
CDH11-PRC1chr1665005481chr15915128521120NRASRCFHLACCGAGCCAGTCGCTGCTTCCACCTGT
CDH11-PRC1chr1665005481chr15915128521221RASRCFHLFGAGCCAGTCGCTGCTTCCACCTGTTCA
CDH11-PRC1chr1665005481chr15915128521222RASRCFHLFRGAGCCAGTCGCTGCTTCCACCTGTTCAGGG
CDH11-PRC1chr1665005481chr1591512852516NFTVRDNRASRATTTCACAGTCAGAGACAACCGAGCCAGTCGCT
CDH11-PRC1chr1665005481chr1591512852616FTVRDNRASRTCACAGTCAGAGACAACCGAGCCAGTCGCT
CDH11-PRC1chr1665005481chr1591512852716TVRDNRASRCAGTCAGAGACAACCGAGCCAGTCGCT

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
CDH11-PRC1chr1665005481chr1591512852116IHNPNFTVRDNRASRTTCACAATCCAAATTTCACAGTCAGAGACAACCGAGCCAGTCGCT
CDH11-PRC1chr1665005481chr1591512852217HNPNFTVRDNRASRCACAATCCAAATTTCACAGTCAGAGACAACCGAGCCAGTCGCTGCT
CDH11-PRC1chr1665005481chr1591512852318NPNFTVRDNRASRCFATCCAAATTTCACAGTCAGAGACAACCGAGCCAGTCGCTGCTTCC

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Information of the samples that have these potential fusion neoantigens of CDH11-PRC1

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
BRCACDH11-PRC1chr1665005481ENST00000268603chr1591512852ENST00000361188TCGA-A2-A4S1-01A

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Potential target of CAR-T therapy development for CDH11-PRC1

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 CDH11-PRC1

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 CDH11-PRC1

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