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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CNTNAP3-FRG1 (FusionGDB2 ID:17925)

Fusion Gene Summary for CNTNAP3-FRG1

check button Fusion gene summary
Fusion gene informationFusion gene name: CNTNAP3-FRG1
Fusion gene ID: 17925
HgeneTgene
Gene symbol

CNTNAP3

FRG1

Gene ID

79937

2483

Gene namecontactin associated protein family member 3FSHD region gene 1
SynonymsCASPR3|CNTNAP3AFRG1A|FSG1
Cytomap

9p12

4q35.2

Type of geneprotein-codingprotein-coding
Descriptioncontactin-associated protein-like 3cell recognition molecule Caspr3contactin associated protein like 3protein FRG1FSHD region gene 1 proteinfacioscapulohumeral muscular dystrophy region gene-1
Modification date2020032920200313
UniProtAcc

Q9BZ76

Q14331

Ensembl transtripts involved in fusion geneENST00000297668, ENST00000323947, 
ENST00000358144, ENST00000377656, 
ENST00000377659, ENST00000377653, 
ENST00000514482, ENST00000226798, 
Fusion gene scores* DoF score1 X 1 X 1=15 X 3 X 5=75
# samples 15
** MAII scorelog2(1/1*10)=3.32192809488736log2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CNTNAP3 [Title/Abstract] AND FRG1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCNTNAP3(39238990)-FRG1(190878553), # samples:1
CNTNAP3(39238990)-FRG1(190881903), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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 buttonFusion gene breakpoints across CNTNAP3 (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 FRG1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BLCATCGA-XF-A9T4CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
ChimerDB4BLCATCGA-XF-A9T4CNTNAP3chr9

39238990

-FRG1chr4

190881903

+


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Fusion Gene ORF analysis for CNTNAP3-FRG1

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-3UTRENST00000297668ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5CDS-3UTRENST00000323947ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5CDS-3UTRENST00000358144ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5CDS-3UTRENST00000377656ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5CDS-3UTRENST00000377659ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5CDS-intronENST00000297668ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5CDS-intronENST00000323947ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5CDS-intronENST00000358144ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5CDS-intronENST00000377656ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5CDS-intronENST00000377659ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5UTR-3CDSENST00000377653ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5UTR-3CDSENST00000377653ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
5UTR-3UTRENST00000377653ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
5UTR-intronENST00000377653ENST00000514482CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
In-frameENST00000297668ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
In-frameENST00000297668ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
In-frameENST00000323947ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
In-frameENST00000323947ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
In-frameENST00000358144ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
In-frameENST00000358144ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
In-frameENST00000377656ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
In-frameENST00000377656ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+
In-frameENST00000377659ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190878553

+
In-frameENST00000377659ENST00000226798CNTNAP3chr9

39238990

-FRG1chr4

190881903

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000297668CNTNAP3chr939238990-ENST00000226798FRG1chr4190878553+88446459808249
ENST00000377656CNTNAP3chr939238990-ENST00000226798FRG1chr4190878553+954534129878249
ENST00000358144CNTNAP3chr939238990-ENST00000226798FRG1chr4190878553+60218232526164
ENST00000323947CNTNAP3chr939238990-ENST00000226798FRG1chr4190878553+84142116765249
ENST00000377659CNTNAP3chr939238990-ENST00000226798FRG1chr4190878553+1049629224973249
ENST00000297668CNTNAP3chr939238990-ENST00000226798FRG1chr4190881903+77946459703214
ENST00000377656CNTNAP3chr939238990-ENST00000226798FRG1chr4190881903+849534129773214
ENST00000358144CNTNAP3chr939238990-ENST00000226798FRG1chr4190881903+49718247814154
ENST00000323947CNTNAP3chr939238990-ENST00000226798FRG1chr4190881903+73642116660214
ENST00000377659CNTNAP3chr939238990-ENST00000226798FRG1chr4190881903+944629224868214

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
ENST00000297668ENST00000226798CNTNAP3chr939238990-FRG1chr4190878553+0.0088313670.9911686
ENST00000377656ENST00000226798CNTNAP3chr939238990-FRG1chr4190878553+0.0111841570.9888158
ENST00000358144ENST00000226798CNTNAP3chr939238990-FRG1chr4190878553+0.0152369770.98476297
ENST00000323947ENST00000226798CNTNAP3chr939238990-FRG1chr4190878553+0.007379540.99262047
ENST00000377659ENST00000226798CNTNAP3chr939238990-FRG1chr4190878553+0.0113002570.98869973
ENST00000297668ENST00000226798CNTNAP3chr939238990-FRG1chr4190881903+0.0216436870.9783563
ENST00000377656ENST00000226798CNTNAP3chr939238990-FRG1chr4190881903+0.026903840.9730962
ENST00000358144ENST00000226798CNTNAP3chr939238990-FRG1chr4190881903+0.088882910.91111714
ENST00000323947ENST00000226798CNTNAP3chr939238990-FRG1chr4190881903+0.0166786480.9833213
ENST00000377659ENST00000226798CNTNAP3chr939238990-FRG1chr4190881903+0.022024920.97797513

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Fusion Genomic Features for CNTNAP3-FRG1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
CNTNAP3chr939238989-FRG1chr4190881902+0.455646750.54435325
CNTNAP3chr939238989-FRG1chr4190878552+0.1157484950.88425153
CNTNAP3chr939238989-FRG1chr4190881902+0.455646750.54435325
CNTNAP3chr939238989-FRG1chr4190878552+0.1157484950.88425153

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.
genomic feature

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for CNTNAP3-FRG1


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/chr9:39238990/chr4:190878553)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CNTNAP3

Q9BZ76

FRG1

Q14331

FUNCTION: Binds to mRNA in a sequence-independent manner. May play a role in regulation of pre-mRNA splicing or in the assembly of rRNA into ribosomal subunits. May be involved in mRNA transport. May be involved in epigenetic regulation of muscle differentiation through regulation of activity of the histone-lysine N-methyltransferase KMT5B. {ECO:0000269|PubMed:11991638, ECO:0000269|PubMed:15060122, ECO:0000269|PubMed:20970242, ECO:0000269|PubMed:21699900, ECO:0000269|PubMed:23720823}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-32442_481301289.0Compositional biasNote=Poly-Ser
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-32442_481301289.0Compositional biasNote=Poly-Ser
TgeneFRG1chr9:39238990chr4:190878553ENST0000022679849235_251144259.0MotifBipartite nuclear localization signal
TgeneFRG1chr9:39238990chr4:190881903ENST0000022679859235_251179259.0MotifBipartite nuclear localization signal

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-3241015_12031301289.0DomainLaminin G-like 4
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324183_3641301289.0DomainLaminin G-like 1
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324370_5451301289.0DomainLaminin G-like 2
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324551_5831301289.0DomainEGF-like 1
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324584_7921301289.0DomainFibrinogen C-terminal
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324793_9581301289.0DomainLaminin G-like 3
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-324962_9961301289.0DomainEGF-like 2
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-3241015_12031301289.0DomainLaminin G-like 4
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324183_3641301289.0DomainLaminin G-like 1
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324370_5451301289.0DomainLaminin G-like 2
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324551_5831301289.0DomainEGF-like 1
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324584_7921301289.0DomainFibrinogen C-terminal
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324793_9581301289.0DomainLaminin G-like 3
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-324962_9961301289.0DomainEGF-like 2
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-3241267_12881301289.0Topological domainCytoplasmic
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-32426_12451301289.0Topological domainExtracellular
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-3241267_12881301289.0Topological domainCytoplasmic
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-32426_12451301289.0Topological domainExtracellular
HgeneCNTNAP3chr9:39238990chr4:190878553ENST00000297668-3241246_12661301289.0TransmembraneHelical
HgeneCNTNAP3chr9:39238990chr4:190881903ENST00000297668-3241246_12661301289.0TransmembraneHelical
TgeneFRG1chr9:39238990chr4:190878553ENST00000226798498_32144259.0Compositional biasNote=Lys-rich
TgeneFRG1chr9:39238990chr4:190881903ENST00000226798598_32179259.0Compositional biasNote=Lys-rich
TgeneFRG1chr9:39238990chr4:190878553ENST000002267984922_32144259.0MotifNuclear localization signal
TgeneFRG1chr9:39238990chr4:190881903ENST000002267985922_32179259.0MotifNuclear localization signal


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Fusion Gene Sequence for CNTNAP3-FRG1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>17925_17925_1_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000297668_FRG1_chr4_190878553_ENST00000226798_length(transcript)=884nt_BP=464nt
CGGGAGTGAGAGCAGGAGCGACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCT
GGGCCGTCCTCAAGGTGCTGCTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGG
CCTCTGCCTTGCCTAGGTCATCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATG
GAGCTGGTGGCTGGACTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCA
CCCAAGGAGGATATGGGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAG
AAGAAAGCATCTGGGGGAAAATGGCTTTGTTGGCCTCAAATAGCTGCTTTATTAGATGCAATGAAGCAGGGGACATAGAAGCAAAAAGTA
AAACAGCAGGAGAAGAAGAAATGATCAAGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAG
GAAATGTAAAACAATGTGAAATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAA
TTCTTAAAAAGGCTCGGAAAGATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGAC

>17925_17925_1_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000297668_FRG1_chr4_190878553_ENST00000226798_length(amino acids)=249AA_BP=135
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETK

--------------------------------------------------------------
>17925_17925_2_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000297668_FRG1_chr4_190881903_ENST00000226798_length(transcript)=779nt_BP=464nt
CGGGAGTGAGAGCAGGAGCGACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCT
GGGCCGTCCTCAAGGTGCTGCTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGG
CCTCTGCCTTGCCTAGGTCATCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATG
GAGCTGGTGGCTGGACTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCA
CCCAAGGAGGATATGGGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAG
AAGAAAGCATCTGGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAAT
GTGAAATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTC
GGAAAGATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTC

>17925_17925_2_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000297668_FRG1_chr4_190881903_ENST00000226798_length(amino acids)=214AA_BP=133
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWIRSCAERETKKKDDIPEEDKGNVKQCEINYVKKFQSFQDHKLKIS

--------------------------------------------------------------
>17925_17925_3_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000323947_FRG1_chr4_190878553_ENST00000226798_length(transcript)=841nt_BP=421nt
CCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGGTGCTGCTGCTTCTCCCCACTCAGACTTG
GAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTAGGTCATCCTTCAGCAGCTCCTCAGAGCT
GTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGACTCCACTTGTGTCAAATAAATACCAATG
GCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATGGGAGCTCTGACTGGGTGACCAGCTACCT
CCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGGGGAAAATGGCTTTGTTGGCCTCAAATAG
CTGCTTTATTAGATGCAATGAAGCAGGGGACATAGAAGCAAAAAGTAAAACAGCAGGAGAAGAAGAAATGATCAAGATTAGATCCTGTGC
TGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAAATCAATTATGTAAAGAAATTTCA
GAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAAGATGGATTTTTGCATGAGACGCT
TCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCTTATCTTTCTGTGTTTTTTTCTGA

>17925_17925_3_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000323947_FRG1_chr4_190878553_ENST00000226798_length(amino acids)=249AA_BP=135
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETK

--------------------------------------------------------------
>17925_17925_4_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000323947_FRG1_chr4_190881903_ENST00000226798_length(transcript)=736nt_BP=421nt
CCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGGTGCTGCTGCTTCTCCCCACTCAGACTTG
GAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTAGGTCATCCTTCAGCAGCTCCTCAGAGCT
GTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGACTCCACTTGTGTCAAATAAATACCAATG
GCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATGGGAGCTCTGACTGGGTGACCAGCTACCT
CCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGATTAGATCCTGTGCTGAAAGAGAAACCAA
GAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAAATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCA
CAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAAGATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGC
CAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCTTATCTTTCTGTGTTTTTTTCTGAATAAAATATTCAGAG

>17925_17925_4_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000323947_FRG1_chr4_190881903_ENST00000226798_length(amino acids)=214AA_BP=133
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWIRSCAERETKKKDDIPEEDKGNVKQCEINYVKKFQSFQDHKLKIS

--------------------------------------------------------------
>17925_17925_5_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000358144_FRG1_chr4_190878553_ENST00000226798_length(transcript)=602nt_BP=182nt
GGACTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGAT
ATGGGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCT
GGGGGAAAATGGCTTTGTTGGCCTCAAATAGCTGCTTTATTAGATGCAATGAAGCAGGGGACATAGAAGCAAAAAGTAAAACAGCAGGAG
AAGAAGAAATGATCAAGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAAC
AATGTGAAATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGG
CTCGGAAAGATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGT

>17925_17925_5_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000358144_FRG1_chr4_190878553_ENST00000226798_length(amino acids)=164AA_BP=50
MQIDLGERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCA

--------------------------------------------------------------
>17925_17925_6_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000358144_FRG1_chr4_190881903_ENST00000226798_length(transcript)=497nt_BP=182nt
GGACTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGAT
ATGGGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCT
GGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAAATCAATT
ATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAAGATGGAT
TTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCTTATCTTT

>17925_17925_6_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000358144_FRG1_chr4_190881903_ENST00000226798_length(amino acids)=154AA_BP=1
MNILFRKKHRKIRQKQKSQSLAVSVGFQFGSPVQKRLMQKSIFPSLFKNFTVFFTYFKFVVLEALKFLYIIDFTLFYISFVFFWNVIFFL

--------------------------------------------------------------
>17925_17925_7_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377656_FRG1_chr4_190878553_ENST00000226798_length(transcript)=954nt_BP=534nt
GCTGGTGCGTGAGGAAGAGAGCTAGAGACTGGACAGGGGAGGCAGAGCAGCGTCAGAGCCGCGCAGGGGACGGGAGTGAGAGCAGGAGCG
ACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGGTGCTG
CTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTAGGTCA
TCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGACTCCA
CTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATGGGAGC
TCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGGGGAAA
ATGGCTTTGTTGGCCTCAAATAGCTGCTTTATTAGATGCAATGAAGCAGGGGACATAGAAGCAAAAAGTAAAACAGCAGGAGAAGAAGAA
ATGATCAAGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAA
ATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAA
GATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCT

>17925_17925_7_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377656_FRG1_chr4_190878553_ENST00000226798_length(amino acids)=249AA_BP=135
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETK

--------------------------------------------------------------
>17925_17925_8_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377656_FRG1_chr4_190881903_ENST00000226798_length(transcript)=849nt_BP=534nt
GCTGGTGCGTGAGGAAGAGAGCTAGAGACTGGACAGGGGAGGCAGAGCAGCGTCAGAGCCGCGCAGGGGACGGGAGTGAGAGCAGGAGCG
ACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGGTGCTG
CTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTAGGTCA
TCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGACTCCA
CTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATGGGAGC
TCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGATTAGA
TCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAAATCAATTATGTAAAG
AAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAAGATGGATTTTTGCAT
GAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCTTATCTTTCTGTGTTT

>17925_17925_8_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377656_FRG1_chr4_190881903_ENST00000226798_length(amino acids)=214AA_BP=133
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWIRSCAERETKKKDDIPEEDKGNVKQCEINYVKKFQSFQDHKLKIS

--------------------------------------------------------------
>17925_17925_9_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377659_FRG1_chr4_190878553_ENST00000226798_length(transcript)=1049nt_BP=629nt
AGAAAGCTGCGGCGCGAGTCCGCGGGGCCGACCTCGGAGACGCAGCTGGGGCCGGGCGCGGCTTGGCGGGAGGGTCTGCAGCGCCGAGGG
AGGCTGCTGGTGCGTGAGGAAGAGAGCTAGAGACTGGACAGGGGAGGCAGAGCAGCGTCAGAGCCGCGCAGGGGACGGGAGTGAGAGCAG
GAGCGACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGG
TGCTGCTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTA
GGTCATCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGA
CTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATG
GGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGG
GGAAAATGGCTTTGTTGGCCTCAAATAGCTGCTTTATTAGATGCAATGAAGCAGGGGACATAGAAGCAAAAAGTAAAACAGCAGGAGAAG
AAGAAATGATCAAGATTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAAT
GTGAAATCAATTATGTAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTC
GGAAAGATGGATTTTTGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTC

>17925_17925_9_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377659_FRG1_chr4_190878553_ENST00000226798_length(amino acids)=249AA_BP=135
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWGKMALLASNSCFIRCNEAGDIEAKSKTAGEEEMIKIRSCAERETK

--------------------------------------------------------------
>17925_17925_10_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377659_FRG1_chr4_190881903_ENST00000226798_length(transcript)=944nt_BP=629nt
AGAAAGCTGCGGCGCGAGTCCGCGGGGCCGACCTCGGAGACGCAGCTGGGGCCGGGCGCGGCTTGGCGGGAGGGTCTGCAGCGCCGAGGG
AGGCTGCTGGTGCGTGAGGAAGAGAGCTAGAGACTGGACAGGGGAGGCAGAGCAGCGTCAGAGCCGCGCAGGGGACGGGAGTGAGAGCAG
GAGCGACGCAGAGCGGCCGTCGCCGTGCCCGGGTCTCAGGGCGCCTGGCTGAAGTGAGCATGGCTTCAGTGGCCTGGGCCGTCCTCAAGG
TGCTGCTGCTTCTCCCCACTCAGACTTGGAGCCCCGTGGGAGCAGGAAATCCACCTGACTGTGATGCCCCACTGGCCTCTGCCTTGCCTA
GGTCATCCTTCAGCAGCTCCTCAGAGCTGTCCAGCAGCCACGGCCCGGGGTTTTCAAGGCTTAATCGAAGAGATGGAGCTGGTGGCTGGA
CTCCACTTGTGTCAAATAAATACCAATGGCTGCAAATTGACCTTGGAGAGAGAATGGAGGTCACTGCTGTCGCCACCCAAGGAGGATATG
GGAGCTCTGACTGGGTGACCAGCTACCTCCTGATGTTCAGTGATGGTGGGAGAAACTGGAAGCAGTATCGCCGAGAAGAAAGCATCTGGA
TTAGATCCTGTGCTGAAAGAGAAACCAAGAAAAAAGATGACATTCCAGAAGAAGACAAAGGAAATGTAAAACAATGTGAAATCAATTATG
TAAAGAAATTTCAGAGCTTCCAAGACCACAAACTTAAAATAAGTAAAGAAGACAGTAAAATTCTTAAAAAGGCTCGGAAAGATGGATTTT
TGCATGAGACGCTTCTGGACAGGAGAGCCAAATTGAAAGCCGACAGATACTGCAAGTGACTGGGATTTTTGTTTCTGCCTTATCTTTCTG

>17925_17925_10_CNTNAP3-FRG1_CNTNAP3_chr9_39238990_ENST00000377659_FRG1_chr4_190881903_ENST00000226798_length(amino acids)=214AA_BP=133
MAEVSMASVAWAVLKVLLLLPTQTWSPVGAGNPPDCDAPLASALPRSSFSSSSELSSSHGPGFSRLNRRDGAGGWTPLVSNKYQWLQIDL
GERMEVTAVATQGGYGSSDWVTSYLLMFSDGGRNWKQYRREESIWIRSCAERETKKKDDIPEEDKGNVKQCEINYVKKFQSFQDHKLKIS

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

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Fusion Gene PPI Analysis for CNTNAP3-FRG1


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for CNTNAP3-FRG1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CNTNAP3-FRG1


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