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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:PEAK1-LINGO1 (FusionGDB2 ID:64199)

Fusion Gene Summary for PEAK1-LINGO1

check button Fusion gene summary
Fusion gene informationFusion gene name: PEAK1-LINGO1
Fusion gene ID: 64199
HgeneTgene
Gene symbol

PEAK1

LINGO1

Gene ID

79834

84894

Gene namepseudopodium enriched atypical kinase 1leucine rich repeat and Ig domain containing 1
SynonymsSGK269LERN1|LRRN6A|MRT64|UNQ201
Cytomap

15q24.3

15q24.3

Type of geneprotein-codingprotein-coding
Descriptioninactive tyrosine-protein kinase PEAK1NKF3 kinase family membersugen kinase 269tyrosine-protein kinase SgK269leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1leucine rich repeat neuronal 6Aleucine-rich repeat and immunoglobulin domain-containing protein 1leucine-rich repeat neuronal protein 1
Modification date2020031320200313
UniProtAcc.

Q96FE5

Ensembl transtripts involved in fusion geneENST00000312493, ENST00000560626, 
ENST00000558305, ENST00000567337, 
ENST00000561030, ENST00000567605, 
ENST00000355300, 
Fusion gene scores* DoF score20 X 14 X 12=336010 X 7 X 7=490
# samples 2213
** MAII scorelog2(22/3360*10)=-3.93288580414146
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/490*10)=-1.91427012597412
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PEAK1 [Title/Abstract] AND LINGO1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointPEAK1(77450845)-LINGO1(77969516), # samples:1
PEAK1(77425347)-LINGO1(77983243), # samples:1
PEAK1(77712348)-LINGO1(78027395), # 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
HgenePEAK1

GO:0016477

cell migration

20534451

HgenePEAK1

GO:0034446

substrate adhesion-dependent cell spreading

20534451

HgenePEAK1

GO:0046777

protein autophosphorylation

20534451

HgenePEAK1

GO:0051893

regulation of focal adhesion assembly

23105102


check buttonFusion gene breakpoints across PEAK1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across LINGO1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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
ChimerDB4HNSCTCGA-CN-A63WPEAK1chr15

77450845

-LINGO1chr15

77969516

-
ChimerDB4LGGTCGA-HW-7495PEAK1chr15

77425347

-LINGO1chr15

77983243

-
ChimerDB4OVTCGA-23-1123-01APEAK1chr15

77712348

-LINGO1chr15

78027395

-


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Fusion Gene ORF analysis for PEAK1-LINGO1

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-5UTRENST00000312493ENST00000561030PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-5UTRENST00000312493ENST00000561030PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5CDS-5UTRENST00000312493ENST00000567605PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-5UTRENST00000312493ENST00000567605PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5CDS-5UTRENST00000560626ENST00000561030PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-5UTRENST00000560626ENST00000561030PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5CDS-5UTRENST00000560626ENST00000567605PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-5UTRENST00000560626ENST00000567605PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5CDS-intronENST00000312493ENST00000355300PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-intronENST00000312493ENST00000355300PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5CDS-intronENST00000560626ENST00000355300PEAK1chr15

77450845

-LINGO1chr15

77969516

-
5CDS-intronENST00000560626ENST00000355300PEAK1chr15

77425347

-LINGO1chr15

77983243

-
5UTR-5UTRENST00000558305ENST00000567605PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-5UTRENST00000560626ENST00000567605PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-5UTRENST00000567337ENST00000567605PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000558305ENST00000355300PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000558305ENST00000561030PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000560626ENST00000355300PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000560626ENST00000561030PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000567337ENST00000355300PEAK1chr15

77712348

-LINGO1chr15

78027395

-
5UTR-intronENST00000567337ENST00000561030PEAK1chr15

77712348

-LINGO1chr15

78027395

-
intron-5UTRENST00000312493ENST00000567605PEAK1chr15

77712348

-LINGO1chr15

78027395

-
intron-5UTRENST00000558305ENST00000561030PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-5UTRENST00000558305ENST00000561030PEAK1chr15

77425347

-LINGO1chr15

77983243

-
intron-5UTRENST00000558305ENST00000567605PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-5UTRENST00000558305ENST00000567605PEAK1chr15

77425347

-LINGO1chr15

77983243

-
intron-5UTRENST00000567337ENST00000561030PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-5UTRENST00000567337ENST00000561030PEAK1chr15

77425347

-LINGO1chr15

77983243

-
intron-5UTRENST00000567337ENST00000567605PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-5UTRENST00000567337ENST00000567605PEAK1chr15

77425347

-LINGO1chr15

77983243

-
intron-intronENST00000312493ENST00000355300PEAK1chr15

77712348

-LINGO1chr15

78027395

-
intron-intronENST00000312493ENST00000561030PEAK1chr15

77712348

-LINGO1chr15

78027395

-
intron-intronENST00000558305ENST00000355300PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-intronENST00000558305ENST00000355300PEAK1chr15

77425347

-LINGO1chr15

77983243

-
intron-intronENST00000567337ENST00000355300PEAK1chr15

77450845

-LINGO1chr15

77969516

-
intron-intronENST00000567337ENST00000355300PEAK1chr15

77425347

-LINGO1chr15

77983243

-

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)

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

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Fusion Genomic Features for PEAK1-LINGO1


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)

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.

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.

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Fusion Protein Features for PEAK1-LINGO1


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/:77450845/:77969516)
- 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
.LINGO1

Q96FE5

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Functional component of the Nogo receptor signaling complex (RTN4R/NGFR) in RhoA activation responsible for some inhibition of axonal regeneration by myelin-associated factors (PubMed:14966521, PubMed:15694321). Is also an important negative regulator of oligodentrocyte differentiation and axonal myelination (PubMed:15895088). Acts in conjunction with RTN4 and RTN4R in regulating neuronal precursor cell motility during cortical development (By similarity). {ECO:0000250|UniProtKB:Q9D1T0, ECO:0000269|PubMed:14966521, ECO:0000269|PubMed:15694321, ECO:0000269|PubMed:15895088}.

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

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for PEAK1-LINGO1


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.

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Fusion Gene PPI Analysis for PEAK1-LINGO1


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 PEAK1-LINGO1


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 PEAK1-LINGO1


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