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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:CSNK1G1-TPM1 (FusionGDB2 ID:HG53944TG7168)

Fusion Gene Summary for CSNK1G1-TPM1

check button Fusion gene summary
Fusion gene informationFusion gene name: CSNK1G1-TPM1
Fusion gene ID: hg53944tg7168
HgeneTgene
Gene symbol

CSNK1G1

TPM1

Gene ID

53944

7168

Gene namecasein kinase 1 gamma 1tropomyosin 1
SynonymsCK1gamma1C15orf13|CMD1Y|CMH3|HEL-S-265|HTM-alpha|LVNC9|TMSA
Cytomap('CSNK1G1')('TPM1')

15q22.31

15q22.2

Type of geneprotein-codingprotein-coding
Descriptioncasein kinase I isoform gamma-1tropomyosin alpha-1 chaincardiomyopathy, hypertrophic 3epididymis secretory protein Li 265sarcomeric tropomyosin kappa
Modification date2020031320200320
UniProtAcc

Q9HCP0

.
Ensembl transtripts involved in fusion geneENST00000303032, ENST00000303052, 
ENST00000607537, 
Fusion gene scores* DoF score14 X 11 X 7=107814 X 8 X 8=896
# samples 1516
** MAII scorelog2(15/1078*10)=-2.84532277225662
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(16/896*10)=-2.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CSNK1G1 [Title/Abstract] AND TPM1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCSNK1G1(64648186)-TPM1(63349183), # 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
HgeneCSNK1G1

GO:0018105

peptidyl-serine phosphorylation

25500533



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
ChimerDB4COADTCGA-DM-A1D8CSNK1G1chr15

64648186

-TPM1chr15

63349183

+


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Fusion Gene ORF analysis for CSNK1G1-TPM1

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
5UTR-3CDSENST00000303032ENST00000288398CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-3CDSENST00000303032ENST00000358278CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-3CDSENST00000303052ENST00000288398CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-3CDSENST00000303052ENST00000358278CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-3CDSENST00000607537ENST00000288398CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-3CDSENST00000607537ENST00000358278CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000267996CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000317516CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000334895CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000357980CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000403994CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000404484CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000559281CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000559397CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000559556CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000560445CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303032ENST00000560959CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000267996CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000317516CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000334895CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000357980CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000403994CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000404484CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000559281CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000559397CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000559556CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000560445CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000303052ENST00000560959CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000267996CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000317516CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000334895CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000357980CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000403994CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000404484CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000559281CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000559397CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000559556CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000560445CSNK1G1chr15

64648186

-TPM1chr15

63349183

+
5UTR-intronENST00000607537ENST00000560959CSNK1G1chr15

64648186

-TPM1chr15

63349183

+

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 CSNK1G1-TPM1


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)
CSNK1G1chr1564648186-TPM1chr1563349183+7.93E-121
CSNK1G1chr1564648186-TPM1chr1563349183+7.93E-121


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 CSNK1G1-TPM1


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/:64648186/:63349183)
- 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
CSNK1G1

Q9HCP0

.
FUNCTION: Serine/threonine-protein kinase. Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates. It can phosphorylate a large number of proteins. Participates in Wnt signaling. Regulates fast synaptic transmission mediated by glutamate (By similarity). Phosphorylates CLSPN. {ECO:0000250, ECO:0000269|PubMed:21680713}.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 CSNK1G1-TPM1


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 CSNK1G1-TPM1


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 CSNK1G1-TPM1


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 CSNK1G1-TPM1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0007194Hypertrophic Cardiomyopathy18CLINGEN
TgeneC1861863CARDIOMYOPATHY, FAMILIAL HYPERTROPHIC, 3 (disorder)9CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneC2678476Cardiomyopathy, Dilated, 1y5CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneC0014859Esophageal Neoplasms1CTD_human
TgeneC0020538Hypertensive disease1CTD_human
TgeneC0022548Keloid1CTD_human
TgeneC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneC0279626Squamous cell carcinoma of esophagus1CTD_human
TgeneC0340427Familial dilated cardiomyopathy1ORPHANET
TgeneC0546837Malignant neoplasm of esophagus1CTD_human
TgeneC0597124Obstructive asymmetric septal hypertrophy1CTD_human
TgeneC0700053Idiopathic hypertrophic subaortic stenosis1CTD_human
TgeneC0949658Cardiomyopathy, Hypertrophic, Familial1CTD_human
TgeneC1960469Left ventricular noncompaction1ORPHANET