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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:RBM6-TTC7A (FusionGDB2 ID:72995)

Fusion Gene Summary for RBM6-TTC7A

check button Fusion gene summary
Fusion gene informationFusion gene name: RBM6-TTC7A
Fusion gene ID: 72995
HgeneTgene
Gene symbol

RBM6

TTC7A

Gene ID

10180

57217

Gene nameRNA binding motif protein 6tetratricopeptide repeat domain 7A
Synonyms3G2|DEF-3|DEF3|HLC-11|NY-LU-12|g16GIDID|MINAT|TTC7
Cytomap

3p21.31

2p21

Type of geneprotein-codingprotein-coding
DescriptionRNA-binding protein 6RNA-binding protein DEF-3lung cancer antigen NY-LU-12lung cancer protooncogene 11tetratricopeptide repeat protein 7ATPR repeat protein 7A
Modification date2020031320200320
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000266022, ENST00000422955, 
ENST00000442092, ENST00000443081, 
ENST00000539992, ENST00000421682, 
ENST00000441115, 		ENST00000263737, 
ENST00000394850, ENST00000461601, 
ENST00000536057, ENST00000319190, 
ENST00000409245, 
Fusion gene scores* DoF score31 X 22 X 13=886612 X 13 X 9=1404
# samples 3115
** MAII scorelog2(31/8866*10)=-4.83794324189103
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(15/1404*10)=-3.22650852980868
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RBM6 [Title/Abstract] AND TTC7A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRBM6(50106197)-TTC7A(47287908), # samples:1
Anticipated loss of major functional domain due to fusion event.RBM6-TTC7A seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
RBM6-TTC7A seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
RBM6-TTC7A 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
TgeneTTC7A

GO:0072659

protein localization to plasma membrane

23229899


check buttonFusion gene breakpoints across RBM6 (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 TTC7A (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
ChimerDB4SARCTCGA-K1-A3PO-01ARBM6chr3

50106197

-TTC7Achr2

47287908

+


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Fusion Gene ORF analysis for RBM6-TTC7A

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-intronENST00000266022ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000266022ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000266022ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000266022ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000422955ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000422955ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000422955ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000422955ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000442092ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000442092ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000442092ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000442092ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000443081ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000443081ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000443081ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000443081ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000539992ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000539992ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000539992ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5CDS-intronENST00000539992ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-3CDSENST00000421682ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-3CDSENST00000421682ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-intronENST00000421682ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-intronENST00000421682ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-intronENST00000421682ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
5UTR-intronENST00000421682ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000266022ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000266022ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000422955ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000422955ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000442092ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000442092ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000443081ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000443081ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000539992ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
Frame-shiftENST00000539992ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-3CDSENST00000441115ENST00000319190RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-3CDSENST00000441115ENST00000409245RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-intronENST00000441115ENST00000263737RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-intronENST00000441115ENST00000394850RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-intronENST00000441115ENST00000461601RBM6chr3

50106197

-TTC7Achr2

47287908

+
intron-intronENST00000441115ENST00000536057RBM6chr3

50106197

-TTC7Achr2

47287908

+

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 RBM6-TTC7A


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 RBM6-TTC7A


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/:50106197/:47287908)
- 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 RBM6-TTC7A


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 RBM6-TTC7A


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 RBM6-TTC7A


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 RBM6-TTC7A


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