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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:TTC19-NCOR1 (FusionGDB2 ID:94923)

Fusion Gene Summary for TTC19-NCOR1

check button Fusion gene summary
Fusion gene informationFusion gene name: TTC19-NCOR1
Fusion gene ID: 94923
HgeneTgene
Gene symbol

TTC19

NCOR1

Gene ID

54902

9611

Gene nametetratricopeptide repeat domain 19nuclear receptor corepressor 1
Synonyms2010204O13Rik|MC3DN2N-CoR|N-CoR1|PPP1R109|TRAC1|hN-CoR
Cytomap

17p12

17p12-p11.2

Type of geneprotein-codingprotein-coding
Descriptiontetratricopeptide repeat protein 19, mitochondrialTPR repeat protein 19nuclear receptor corepressor 1protein phosphatase 1, regulatory subunit 109thyroid hormone- and retinoic acid receptor-associated corepressor 1
Modification date2020032720200313
UniProtAcc.

O75376

Ensembl transtripts involved in fusion geneENST00000497842, ENST00000261647, 
ENST00000486880, 		ENST00000268712, 
ENST00000395851, ENST00000395857, 
ENST00000395848, ENST00000583226, 
Fusion gene scores* DoF score12 X 8 X 8=76814 X 14 X 6=1176
# samples 1414
** MAII scorelog2(14/768*10)=-2.45567948377619
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(14/1176*10)=-3.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TTC19 [Title/Abstract] AND NCOR1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNCOR1(15960827)-TTC19(15928330), # samples:1
TTC19(15930017)-NCOR1(15938260), # samples:1
Anticipated loss of major functional domain due to fusion event.NCOR1-TTC19 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
NCOR1-TTC19 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
NCOR1-TTC19 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
NCOR1-TTC19 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
TgeneNCOR1

GO:0046329

negative regulation of JNK cascade

11931768


check buttonFusion gene breakpoints across TTC19 (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 NCOR1 (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
ChiTaRS5.0N/ABU192483TTC19chr17

15930017

+NCOR1chr17

15938260

-


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Fusion Gene ORF analysis for TTC19-NCOR1

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-3CDSENST00000497842ENST00000268712TTC19chr17

15930017

+NCOR1chr17

15938260

-
3UTR-3CDSENST00000497842ENST00000395851TTC19chr17

15930017

+NCOR1chr17

15938260

-
3UTR-3CDSENST00000497842ENST00000395857TTC19chr17

15930017

+NCOR1chr17

15938260

-
3UTR-intronENST00000497842ENST00000395848TTC19chr17

15930017

+NCOR1chr17

15938260

-
3UTR-intronENST00000497842ENST00000583226TTC19chr17

15930017

+NCOR1chr17

15938260

-
5CDS-intronENST00000261647ENST00000395848TTC19chr17

15930017

+NCOR1chr17

15938260

-
5CDS-intronENST00000261647ENST00000583226TTC19chr17

15930017

+NCOR1chr17

15938260

-
5CDS-intronENST00000486880ENST00000395848TTC19chr17

15930017

+NCOR1chr17

15938260

-
5CDS-intronENST00000486880ENST00000583226TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000261647ENST00000268712TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000261647ENST00000395851TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000261647ENST00000395857TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000486880ENST00000268712TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000486880ENST00000395851TTC19chr17

15930017

+NCOR1chr17

15938260

-
In-frameENST00000486880ENST00000395857TTC19chr17

15930017

+NCOR1chr17

15938260

-

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 TTC19-NCOR1


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.
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.

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Fusion Protein Features for TTC19-NCOR1


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/chr17:15960827/chr17:15928330)
- 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
.NCOR1

O75376

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: Mediates transcriptional repression by certain nuclear receptors (PubMed:20812024). Part of a complex which promotes histone deacetylation and the formation of repressive chromatin structures which may impede the access of basal transcription factors. Participates in the transcriptional repressor activity produced by BCL6. Recruited by ZBTB7A to the androgen response elements/ARE on target genes, negatively regulates androgen receptor signaling and androgen-induced cell proliferation (PubMed:20812024). Mediates the NR1D1-dependent repression and circadian regulation of TSHB expression (By similarity). The NCOR1-HDAC3 complex regulates the circadian expression of the core clock gene ARTNL/BMAL1 and the genes involved in lipid metabolism in the liver (By similarity). {ECO:0000250|UniProtKB:Q60974, ECO:0000269|PubMed:14527417, ECO:0000269|PubMed:20812024}.

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
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+91073_76331381.0Compositional biasNote=Poly-Glu
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+91073_76452502.0Compositional biasNote=Poly-Glu
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+910136_169331381.0RepeatNote=TPR 1
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+910179_212331381.0RepeatNote=TPR 2
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+910237_270331381.0RepeatNote=TPR 3
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+910279_312331381.0RepeatNote=TPR 4
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+910136_169452502.0RepeatNote=TPR 1
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+910179_212452502.0RepeatNote=TPR 2
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+910237_270452502.0RepeatNote=TPR 3
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+910279_312452502.0RepeatNote=TPR 4
HgeneTTC19chr17:15930017chr17:15938260ENST00000486880+910318_351452502.0RepeatNote=TPR 5
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019174_2160915.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019299_3280915.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019501_5570915.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191032_10350915.0Compositional biasNote=Poly-Pro
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191707_17120915.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191952_19630915.0Compositional biasNote=Poly-Ser
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039584801958_640915.0Compositional biasNote=Poly-Gln
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019593_6030915.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019607_6170915.0Compositional biasNote=Pro-rich
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019435_4860915.0DomainSANT 1
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019623_6740915.0DomainSANT 2
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191933_19370915.0MotifNote=CORNR box 1
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480192055_20590915.0MotifNote=CORNR box 2
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480192263_22670915.0MotifNote=CORNR box 3
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142452263_226722152338.0MotifNote=CORNR box 3
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480192032_21150915.0RegionID1
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480192212_22730915.0RegionID2

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTTC19chr17:15930017chr17:15938260ENST00000261647+910318_351331381.0RepeatNote=TPR 5
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346174_21623182441.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346299_32823182441.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346501_55723182441.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245174_21622152338.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245299_32822152338.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245501_55722152338.0Coiled coilOntology_term=ECO:0000255
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461032_103523182441.0Compositional biasNote=Poly-Pro
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461707_171223182441.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461952_196323182441.0Compositional biasNote=Poly-Ser
TgeneNCOR1chr17:15930017chr17:15938260ENST00000268712434658_6423182441.0Compositional biasNote=Poly-Gln
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346593_60323182441.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346607_61723182441.0Compositional biasNote=Pro-rich
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451032_103522152338.0Compositional biasNote=Poly-Pro
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451707_171222152338.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451952_196322152338.0Compositional biasNote=Poly-Ser
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395851424558_6422152338.0Compositional biasNote=Poly-Gln
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245593_60322152338.0Compositional biasNote=Poly-Ala
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245607_61722152338.0Compositional biasNote=Pro-rich
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346435_48623182441.0DomainSANT 1
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346623_67423182441.0DomainSANT 2
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245435_48622152338.0DomainSANT 1
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245623_67422152338.0DomainSANT 2
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461933_193723182441.0MotifNote=CORNR box 1
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243462055_205923182441.0MotifNote=CORNR box 2
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243462263_226723182441.0MotifNote=CORNR box 3
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451933_193722152338.0MotifNote=CORNR box 1
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142452055_205922152338.0MotifNote=CORNR box 2
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243462032_211523182441.0RegionID1
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243462212_227323182441.0RegionID2
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142452032_211522152338.0RegionID1
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142452212_227322152338.0RegionID2


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Fusion Gene Sequence for TTC19-NCOR1


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 TTC19-NCOR1


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
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191501_24400915.0C1D
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019988_18160915.0ETO
TgeneNCOR1chr17:15930017chr17:15938260ENST00000395848019254_3120915.0SIN3A/B
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958480191_3730915.0ZBTB33 and HEXIM1


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461501_24402318.33333333333352441.0C1D
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451501_24402215.33333333333352338.0C1D
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346988_18162318.33333333333352441.0ETO
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245988_18162215.33333333333352338.0ETO
TgeneNCOR1chr17:15930017chr17:15938260ENST000002687124346254_3122318.33333333333352441.0SIN3A/B
TgeneNCOR1chr17:15930017chr17:15938260ENST000003958514245254_3122215.33333333333352338.0SIN3A/B
TgeneNCOR1chr17:15930017chr17:15938260ENST0000026871243461_3732318.33333333333352441.0ZBTB33 and HEXIM1
TgeneNCOR1chr17:15930017chr17:15938260ENST0000039585142451_3732215.33333333333352338.0ZBTB33 and HEXIM1


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 TTC19-NCOR1


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 TTC19-NCOR1


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