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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:CTTN-LRTOMT (FusionGDB2 ID:HG2017TG220074)

Fusion Gene Summary for CTTN-LRTOMT

check button Fusion gene summary
Fusion gene informationFusion gene name: CTTN-LRTOMT
Fusion gene ID: hg2017tg220074
HgeneTgene
Gene symbol

CTTN

LRTOMT

Gene ID

2017

220074

Gene namecortactinleucine rich transmembrane and O-methyltransferase domain containing
SynonymsEMS1CFAP111|DFNB63|LRRC51
Cytomap('CTTN')('LRTOMT')

11q13.3

11q13.4

Type of geneprotein-codingprotein-coding
Descriptionsrc substrate cortactin1110020L01Rikamplaxinems1 sequence (mammary tumor and squamous cell carcinoma-associated (p80/85 src substrate)epididymis secretory sperm binding proteinoncogene EMS1transmembrane O-methyltransferaseleucine-rich repeat-containing protein 51leucine rich transmembrane and 0-methyltransferase domain containing
Modification date2020032720200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000527622, ENST00000301843, 
ENST00000346329, ENST00000376561, 
ENST00000538675, 
Fusion gene scores* DoF score35 X 27 X 11=103955 X 5 X 3=75
# samples 435
** MAII scorelog2(43/10395*10)=-4.59540928815627
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CTTN [Title/Abstract] AND LRTOMT [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCTTN(70244720)-LRTOMT(71791658), # 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 button Fusion gene information
* 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
ChimerDB4BRCATCGA-E9-A228-01ACTTNchr11

70244720

+LRTOMTchr11

71791658

+


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Fusion Gene ORF analysis for CTTN-LRTOMT

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
3UTR-5UTRENST00000527622ENST00000307198CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-5UTRENST00000527622ENST00000419228CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-5UTRENST00000527622ENST00000435085CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000289488CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000324866CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000423494CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000439209CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000440313CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000447974CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000536917CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000538478CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000539271CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000539587CTTNchr11

70244720

+LRTOMTchr11

71791658

+
3UTR-intronENST00000527622ENST00000541614CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000301843ENST00000307198CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000301843ENST00000419228CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000301843ENST00000435085CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000346329ENST00000307198CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000346329ENST00000419228CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000346329ENST00000435085CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000376561ENST00000307198CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000376561ENST00000419228CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-5UTRENST00000376561ENST00000435085CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000289488CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000324866CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000423494CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000439209CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000440313CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000447974CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000536917CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000538478CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000539271CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000539587CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000301843ENST00000541614CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000289488CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000324866CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000423494CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000439209CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000440313CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000447974CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000536917CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000538478CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000539271CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000539587CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000346329ENST00000541614CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000289488CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000324866CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000423494CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000439209CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000440313CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000447974CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000536917CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000538478CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000539271CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000539587CTTNchr11

70244720

+LRTOMTchr11

71791658

+
5UTR-intronENST00000376561ENST00000541614CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-5UTRENST00000538675ENST00000307198CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-5UTRENST00000538675ENST00000419228CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-5UTRENST00000538675ENST00000435085CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000289488CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000324866CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000423494CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000439209CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000440313CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000447974CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000536917CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000538478CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000539271CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000539587CTTNchr11

70244720

+LRTOMTchr11

71791658

+
intron-intronENST00000538675ENST00000541614CTTNchr11

70244720

+LRTOMTchr11

71791658

+

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 CTTN-LRTOMT


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)


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Fusion Protein Features for CTTN-LRTOMT


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/:70244720/:71791658)
- 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
..
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: 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}.

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 CTTN-LRTOMT


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 CTTN-LRTOMT


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 CTTN-LRTOMT


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 CTTN-LRTOMT


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCTTNC0007137Squamous cell carcinoma1CTD_human
HgeneCTTNC0023531Leukoplakia1CTD_human
HgeneCTTNC0087031Juvenile-Onset Still Disease1CTD_human
HgeneCTTNC1704317Leukokeratosis1CTD_human
HgeneCTTNC3495559Juvenile arthritis1CTD_human
HgeneCTTNC3714758Juvenile psoriatic arthritis1CTD_human
HgeneCTTNC4552091Polyarthritis, Juvenile, Rheumatoid Factor Negative1CTD_human
HgeneCTTNC4704862Polyarthritis, Juvenile, Rheumatoid Factor Positive1CTD_human
TgeneC1969621DEAFNESS, AUTOSOMAL RECESSIVE 635CLINGEN;CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneC0018784Sensorineural Hearing Loss (disorder)1GENOMICS_ENGLAND
TgeneC1384666hearing impairment1GENOMICS_ENGLAND