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Center for Computational Systems Medicine
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Kinase Fusion Gene Summary

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Kinase Fusion Gene Sample Information

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Kinase Fusion ORF Analysis

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Kinase Fusion Amino Acid Sequences

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Multiple Sequence Alignment of All Fusion Protein Isoforms

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Kinase Fusion Protein Functional Features

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Kinase Fusion Protein Structures

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Comparison of Fusion Protein Isoforms

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Comparison of Fusion Protein Sequences/Structures with Known Sequences/Structures from PDB

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pLDDT Scores and Difference Analysis of pLDDT Scores Between the Active Sites (Best) and Non-Active Sites.

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Ramachandran Plot of Kinase Fusion Protein Structure

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Potential Active Site Information

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Virtual Screening Results

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Kinase-Substrate Information

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Related Drugs with This Kinase Fusion Protein

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Related Disease with This Kinase Fusion Protein

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Clinical Trials of the Found Drugs/Small Molecules

Kinase Fusion Gene:CSNK1E_KDELR3

Kinase Fusion Protein Summary

check button Kinase Fusion gene summary
Kinase Fusion partner gene informationKinase Fusion gene name: CSNK1E_KDELR3
KinaseFusionDB ID: KFG1499
FusionGDB2.0 ID: KFG1499
HgeneTgene
Gene symbol

CSNK1E

KDELR3

Gene ID

1454

11015

Gene namecasein kinase 1 epsilonKDEL endoplasmic reticulum protein retention receptor 3
SynonymsCKIe|CKIepsilon|HCKIEERD23|ERD2L3
Cytomap

22q13.1

22q13.1

Type of geneprotein-codingprotein-coding
Descriptioncasein kinase I isoform epsilonER lumen protein-retaining receptor 3KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3KDEL receptor 3
Modification date2024040720240305
UniProtAcc

P49674

O43731

Ensembl transtripts involved in fusion geneENST idsENST00000400206, ENST00000359867, 
ENST00000396832, ENST00000403904, 
ENST00000405675, ENST00000413574, 
ENST00000498529, 		ENST00000216014, 
ENST00000409006, ENST00000471268, 
Context (manual curation of fusion genes in KinaseFusionDB)

PubMed: CSNK1E [Title/Abstract] AND KDELR3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)CSNK1E(38776375)-KDELR3(38870528), # samples:2
check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCSNK1E

GO:0006468

protein phosphorylation

15917222

HgeneCSNK1E

GO:0032091

negative regulation of protein binding

23109420

HgeneCSNK1E

GO:0032880

regulation of protein localization

17244647

HgeneCSNK1E

GO:0060070

canonical Wnt signaling pathway

14722104

TgeneKDELR3

GO:0006890

retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum

18086916


check buttonKinase Fusion gene breakpoints across CSNK1E (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonKinase Fusion gene breakpoints across KDELR3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.


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Kinase Fusion Gene Sample Information

check buttonKinase Fusion gene information.
check button Kinase Fusion gene information from four resources (ChiTars 5.0, ChimerDB 4.0, COSMIC, and CCLE)
* 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.
SourceSampleHgeneHchrHbpTgeneTchrTbp
ChimerDB4TCGA-36-1574-01ACSNK1Echr22

38776375

KDELR3chr22

38870528



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Kinase Fusion ORF Analysis


check buttonKinase Fusion information from ORFfinder translation from full-length transcript sequence from KinaseFusionDB.
HenstTenstHgeneHchrHbpTgeneTchrTbpSeq length
(transcript)		Seq length
(amino acids)

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Kinase Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from KinaseFusionDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>Henst_Tenst_Hgene_Hchr_Hbp_Tgene_Tchr_Tbp_length(fusion AA)_AAseq

Multiple Sequence Alignment of All Fusion Protein Isoforms



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Kinase Fusion Protein Functional Features


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/:38776375/:38870528)
- 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
CSNK1E

P49674

KDELR3

O43731

FUNCTION: Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates (Probable). Participates in Wnt signaling (PubMed:12556519, PubMed:23413191). Phosphorylates DVL1 (PubMed:12556519). Phosphorylates DVL2 (PubMed:23413191). Phosphorylates NEDD9/HEF1 (By similarity). Central component of the circadian clock (PubMed:16790549). In balance with PP1, determines the circadian period length, through the regulation of the speed and rhythmicity of PER1 and PER2 phosphorylation (PubMed:15917222, PubMed:16790549). Controls PER1 and PER2 nuclear transport and degradation (By similarity). Inhibits cytokine-induced granuloytic differentiation (PubMed:15070676). {ECO:0000250|UniProtKB:Q9JMK2, ECO:0000269|PubMed:12556519, ECO:0000269|PubMed:15070676, ECO:0000269|PubMed:15917222, ECO:0000269|PubMed:16790549, ECO:0000269|PubMed:23413191, ECO:0000305|PubMed:7797465}.FUNCTION: Receptor for the C-terminal sequence motif K-D-E-L that is present on endoplasmic reticulum resident proteins and that mediates their recycling from the Golgi back to the endoplasmic reticulum. {ECO:0000269|PubMed:18086916}.

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.

check button - Retained domain in the 5'-partner of fusion protein (protein functional feature from UniProt).
PartnerHgeneeneHbpTgeneeneTbpENSTBPexonTotalExonProtein feature lociBPlociTotalLenFeatureNote


check button - Retained domain in the 3'-partner of fusion protein (protein functional feature from UniProt).
PartnerHgeneeneHbpTgeneeneTbpENSTBPexonTotalExonProtein feature lociBPlociTotalLenFeatureNote


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Kinase-Substrate Information of CSNK1E_KDELR3


check button Phosphorylation target of the kinase
(phosphosite, 03-17-2024)
KinaseKinase UniProt AccKinase speciesSubstrateSubstrate UniProt AccSubstrate phosphorylated residuesSubstrate phosphorylated sites (+/-7AA)Domain
CSNK1EP49674humanPER2O15055S662ALPGKAEsVAsLTsQ
CSNK1EP49674humanTARDBPQ13148S379NSYsGsNsGAAIGWG
CSNK1EP49674humanDVL3Q92997S311EINFENMsNDDAVRVPDZ
CSNK1EP49674humanSNAI1O95863S104GkGsQPPsPPsPAPs
CSNK1EP49674humanTRPM4Q8TD43S839GLSGGGGsLASGGPGIon_trans
CSNK1EP49674humanNR3C2P08235T800LPLEDQItLIQYSWMHormone_recep
CSNK1EP49674humanNCOA3Q9Y6Q9S102VQkADVssTGQGVID
CSNK1EP49674humanCSNK1EP49674S323RMGQLrGsAtRALPP
CSNK1EP49674humanDVL2O14641S143FHPNVSssHENLEPEDishevelled
CSNK1EP49674humanTARDBPQ13148S410ssMDskssGWGM___
CSNK1EP49674humanLRP6O75581S1420YVVHGPAsVPLGYVP
CSNK1EP49674humanSNCAP37840T64EktkEQVtNVGGAVVSynuclein
CSNK1EP49674humanLRP6O75581S1431GYVPHPSsLSGSLPG
CSNK1EP49674humanYAP1P46937S400SRDEstDsGLsMsSy
CSNK1EP49674humanCSNK1EP49674T407sRIPAsQtsVPFDHL
CSNK1EP49674humanCDH1P12830S844GsGsEAAsLSsLNsSCADH_Y-type_LIR
CSNK1EP49674humanTRAF3Q13114Y446SLYSQPFyTGYFGYK
CSNK1EP49674humanTRAF3Q13114S349QNWEEADsMkSSVEs
CSNK1EP49674humanRAD17O75943T681EDyEsDGt_______
CSNK1EP49674humanDVL2O14641T224MSRFssStEQSsASRDishevelled
CSNK1EP49674humanTARDBPQ13148S403GFNGGFGssMDskss
CSNK1EP49674humanDVL3Q92997S633GPAASEHsHRsHHsLDsh_C
CSNK1EP49674humanDVL3Q92997S639HsHRsHHsLAssLRSDsh_C
CSNK1EP49674humanDVL3Q92997S612sDHttRssLRGPRERDsh_C
CSNK1EP49674humanAPCP25054S1279sRCSSLssLSSAEDEAPC_r
CSNK1EP49674humanPER2O15055S668EsVAsLTsQCsYSST
CSNK1EP49674humanTARDBPQ13148S404FNGGFGssMDskssG
CSNK1EP49674humanDVL3Q92997S642RsHHsLAssLRSHHTDsh_C
CSNK1EP49674humanCTNNB1P35222S45GATtTAPsLsGkGNP
CSNK1EP49674humanCSNK1EP49674S408RIPAsQtsVPFDHLG
CSNK1EP49674humanTRAF3Q13114Y116EILALQIyCRNESRG
CSNK1EP49674humanDVL3Q92997S636ASEHsHRsHHsLAssDsh_C
CSNK1EP49674humanLRP6O75581S1490AILNPPPsPAtERsH
CSNK1EP49674humanEIF4EBP1Q13541T41ysttPGGtLFsttPGeIF_4EBP
CSNK1EP49674humanTARDBPQ13148S409GssMDskssGWGM__
CSNK1EP49674humanPER2O15055S665GKAEsVAsLTsQCsY
CSNK1EP49674humanPER2O15055S480PVPHSGSsGYGSLGS
CSNK1EP49674humanFUSP35637S182GNYGQDQssMSSGGG
CSNK1EP49674humanCSNK1EP49674S368NtsPRAIsRVDRERK
CSNK1EP49674humanYAP1P46937S403EstDsGLsMsSySVP
CSNK1EP49674humanAPCP25054S1392sRCTsVSsLDsFESRAPC_r
CSNK1EP49674humanPRKD2Q9BZL6S244sssSssAssyTGRPI
CSNK1EP49674humanCSNK1EP49674S405EVsRIPAsQtsVPFD
CSNK1EP49674humanCTNND1O60716-3S268PQVRVGGssVDLHRF
CSNK1EP49674humanDVL3Q92997S611EsDHttRssLRGPREDsh_C
CSNK1EP49674humanDVL3Q92997S643sHHsLAssLRSHHTHDsh_C
CSNK1EP49674humanCSNK1EP49674T334ALPPGPPtGAtANRL
CSNK1EP49674humanEIF4EBP1Q13541T50FsttPGGtRIIyDRkeIF_4EBP
CSNK1EP49674humanCTNND1O60716S268PQVRVGGssVDLHRF
CSNK1EP49674humanCSNK1EP49674T337PGPPtGAtANRLrsA
CSNK1EP49674humanDVL3Q92997S280DGGIYIGsIMkGGAVPDZ
CSNK1EP49674humanSNAI1O95863S107sQPPsPPsPAPssFS
CSNK1EP49674humanFZD6O60353S648sVSESARsEGRIsPK
CSNK1EP49674humanCSNK1EP49674T325GQLrGsAtRALPPGP


check button Biological Network Integration of This Kinase and Substrates
(GeneMANIA website)

check button Enriched GO biological processes of the phosphorylation target genes of the kinase
KinaseGOIDGO termP.adjust
CSNK1EIDDescription0.00e+00
CSNK1EGO:0060070canonical Wnt signaling pathway1.26e-09
CSNK1EGO:0016055Wnt signaling pathway1.76e-08
CSNK1EGO:0198738cell-cell signaling by wnt1.76e-08
CSNK1EGO:0060828regulation of canonical Wnt signaling pathway5.07e-06
CSNK1EGO:0030111regulation of Wnt signaling pathway2.33e-05
CSNK1EGO:1904953Wnt signaling pathway involved in midbrain dopaminergic neuron differentiation7.74e-05
CSNK1EGO:0007043cell-cell junction assembly1.79e-04
CSNK1EGO:1904948midbrain dopaminergic neuron differentiation1.79e-04
CSNK1EGO:0035567non-canonical Wnt signaling pathway1.85e-04
CSNK1EGO:0030178negative regulation of Wnt signaling pathway2.19e-04
CSNK1EGO:0060562epithelial tube morphogenesis2.43e-04
CSNK1EGO:0030901midbrain development4.30e-04
CSNK1EGO:0001738morphogenesis of a polarized epithelium4.30e-04
CSNK1EGO:0045216cell-cell junction organization4.45e-04
CSNK1EGO:0051090regulation of DNA-binding transcription factor activity5.49e-04
CSNK1EGO:0031400negative regulation of protein modification process7.84e-04
CSNK1EGO:0034329cell junction assembly8.29e-04
CSNK1EGO:0003007heart morphogenesis9.61e-04
CSNK1EGO:0001838embryonic epithelial tube formation9.73e-04
CSNK1EGO:2000027regulation of animal organ morphogenesis9.73e-04
CSNK1EGO:1903829positive regulation of protein localization9.73e-04
CSNK1EGO:0071542dopaminergic neuron differentiation1.03e-03
CSNK1EGO:1990000amyloid fibril formation1.03e-03
CSNK1EGO:0071900regulation of protein serine/threonine kinase activity1.04e-03
CSNK1EGO:0072175epithelial tube formation1.09e-03
CSNK1EGO:0090090negative regulation of canonical Wnt signaling pathway1.14e-03
CSNK1EGO:0060071Wnt signaling pathwa2.45e-05
CSNK1EGO:0016331morphogenesis of embryonic epithelium1.39e-03
CSNK1EGO:0043588skin development1.39e-03
CSNK1EGO:0090175regulation of establishment of planar polarity1.51e-03
CSNK1EGO:0060485mesenchyme development1.51e-03
CSNK1EGO:0008544epidermis development3.07e-03
CSNK1EGO:0090179planar cell polarity pathway involved in neural tube closure3.07e-03
CSNK1EGO:0001736establishment of planar polarity3.07e-03
CSNK1EGO:0007164establishment of tissue polarity3.07e-03
CSNK1EGO:0072182regulation of nephron tubule epithelial cell differentiation3.46e-03
CSNK1EGO:0090178regulation of establishment of planar polarity involved in neural tube closure3.46e-03
CSNK1EGO:0090177establishment of planar polarity involved in neural tube closure3.98e-03
CSNK1EGO:0042762regulation of sulfur metabolic process4.41e-03
CSNK1EGO:0072160nephron tubule epithelial cell differentiation4.41e-03
CSNK1EGO:0035050embryonic heart tube development4.70e-03
CSNK1EGO:0150011regulation of neuron projection arborization4.85e-03
CSNK1EGO:0048568embryonic organ development5.05e-03
CSNK1EGO:0042249establishment of planar polarity of embryonic epithelium5.05e-03
CSNK1EGO:2000696regulation of epithelial cell differentiation involved in kidney development5.05e-03
CSNK1EGO:0001843neural tube closure5.05e-03
CSNK1EGO:0060606tube closure5.05e-03
CSNK1EGO:0051091positive regulation of DNA-binding transcription factor activity5.05e-03
CSNK1EGO:0001942hair follicle development5.05e-03

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Related Drugs to CSNK1E_KDELR3


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

check button Distribution of the number of studies mentioning CSNK1E-KDELR3 and kinase inhibitors the PubMed Abstract (04-01-2024)

Fusion gene - drug pair 1Fusion gene - drug pair 2PMIDPublication dateDOIStudy title

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Related Diseases to CSNK1E_KDELR3


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Related diseases from the literature mentioned this fusion gene and drug.
(PubMed, 04-01-2024)
MeSH IDMeSH term

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


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Clinical Trials of the Found Drugs/Small Molecules


check button Statistics of the Clinical Trials of the Found Kinase Inibitors from clinicaltrials.gov (06-17-2024)

check button Clinical Trials from clinicaltrials.gov (06-17-2024)

Fusion GeneKinase InhibitorNCT IDStudy StatusPhasesDisease# EnrolmentDate