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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:CHRM3_FLT3

Kinase Fusion Protein Summary

check button Kinase Fusion gene summary
Kinase Fusion partner gene informationKinase Fusion gene name: CHRM3_FLT3
KinaseFusionDB ID: KFG1284
FusionGDB2.0 ID: KFG1284
HgeneTgene
Gene symbol

CHRM3

FLT3

Gene ID

1131

2322

Gene namecholinergic receptor muscarinic 3fms related receptor tyrosine kinase 3
SynonymsEGBRS|HM3|PBS|m3AChRCD135|FLK-2|FLK2|STK1
Cytomap

1q43

13q12.2

Type of geneprotein-codingprotein-coding
Descriptionmuscarinic acetylcholine receptor M3acetylcholine receptor, muscarinic 3m3 muscarinic receptorreceptor-type tyrosine-protein kinase FLT3CD135 antigenFL cytokine receptorfetal liver kinase 2fms related tyrosine kinase 3fms-like tyrosine kinase 3growth factor receptor tyrosine kinase type IIIstem cell tyrosine kinase 1
Modification date2024041120240411
UniProtAcc

P20309

P36888

Ensembl transtripts involved in fusion geneENST idsENST00000255380, ENST00000468573, 
ENST00000241453, ENST00000380982, 
ENST00000469894, ENST00000537084, 
Context (manual curation of fusion genes in KinaseFusionDB)

PubMed: CHRM3 [Title/Abstract] AND FLT3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)CHRM3(239693491)-FLT3(28520991), # samples:1
check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCHRM3

GO:0019722

calcium-mediated signaling

17478539

HgeneCHRM3

GO:0032412

regulation of monoatomic ion transmembrane transporter activity

17478539

HgeneCHRM3

GO:0095500

acetylcholine receptor signaling pathway

17478539

TgeneFLT3

GO:0030097

hemopoiesis

7507245


check buttonKinase Fusion gene breakpoints across CHRM3 (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 FLT3 (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
ChiTaRS5.0EI789568CHRM3chr1

239693491

FLT3chr13

28520991



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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/:239693491/:28520991)
- 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
CHRM3

P20309

FLT3

P36888

FUNCTION: The muscarinic acetylcholine receptor mediates various cellular responses, including inhibition of adenylate cyclase, breakdown of phosphoinositides and modulation of potassium channels through the action of G proteins. Primary transducing effect is Pi turnover. {ECO:0000269|PubMed:7565628}.FUNCTION: Tyrosine-protein kinase that acts as a cell-surface receptor for the cytokine FLT3LG and regulates differentiation, proliferation and survival of hematopoietic progenitor cells and of dendritic cells. Promotes phosphorylation of SHC1 and AKT1, and activation of the downstream effector MTOR. Promotes activation of RAS signaling and phosphorylation of downstream kinases, including MAPK1/ERK2 and/or MAPK3/ERK1. Promotes phosphorylation of FES, FER, PTPN6/SHP, PTPN11/SHP-2, PLCG1, and STAT5A and/or STAT5B. Activation of wild-type FLT3 causes only marginal activation of STAT5A or STAT5B. Mutations that cause constitutive kinase activity promote cell proliferation and resistance to apoptosis via the activation of multiple signaling pathways. {ECO:0000269|PubMed:10080542, ECO:0000269|PubMed:11090077, ECO:0000269|PubMed:14504097, ECO:0000269|PubMed:16266983, ECO:0000269|PubMed:16627759, ECO:0000269|PubMed:18490735, ECO:0000269|PubMed:20111072, ECO:0000269|PubMed:21067588, ECO:0000269|PubMed:21262971, ECO:0000269|PubMed:21516120, ECO:0000269|PubMed:7507245}.

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 CHRM3_FLT3


check button Phosphorylation target of the kinase
(phosphosite, 03-17-2024)
KinaseKinase UniProt AccKinase speciesSubstrateSubstrate UniProt AccSubstrate phosphorylated residuesSubstrate phosphorylated sites (+/-7AA)Domain
FLT3P36888humanFLT3P36888Y955ADAEEAMyQNVDGRV
FLT3P36888humanFLT3P36888Y726kEHNFSFyPtFQSHPPK_Tyr_Ser-Thr
FLT3P36888humanFLT3P36888Y591SSDNEyFyVDFREyE
FLT3P36888humanSIRT3Q9NTG7Y226KGLLLRLyTQNIDGL
FLT3P36888humanIDH1O75874Y391PNVQRsDyLNTFEFMIso_dh
FLT3P36888humanIDH2P48735Y107sALATQkysVAVkCAIso_dh
FLT3P36888humanFLT3P36888Y969VSECPHtyQNrrPFS
FLT3P36888humanPTPN11Q06124Y62KIQNtGDyyDLyGGESH2
FLT3P36888humanFLT3P36888Y842DIMSDsNyVVRGNARPK_Tyr_Ser-Thr
FLT3P36888humanFLT3P36888Y599VDFREyEyDLkWEFP
FLT3P36888humanFLT3P36888Y589TGSSDNEyFyVDFRE
FLT3P36888humanPDHA1P08559Y301MsDPGVsyRtREEIQE1_dh
FLT3P36888humanPDK1Q15118Y243ARRLCDLyyINSPEL


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
FLT3IDDescription0.00e+00
FLT3GO:0006099tricarboxylic acid cycle6.25e-05
FLT3GO:0009060aerobic respiration7.24e-05
FLT3GO:0045333cellular respiration1.12e-04
FLT3GO:0015980energy derivation by oxidation of organic compounds2.62e-04
FLT3GO:0019216regulation of lipid metabolic process2.62e-04
FLT3GO:0006086acetyl-CoA biosynthetic process from pyruvate3.97e-04
FLT3GO:0006163purine nucleotide metabolic process5.57e-04
FLT3GO:0072350tricarboxylic acid metabolic process5.57e-04
FLT3GO:00061032-oxoglutarate metabolic process5.57e-04
FLT3GO:0072521purine-containing compound metabolic process5.57e-04
FLT3GO:0006085acetyl-CoA biosynthetic process6.02e-04
FLT3GO:0006084acetyl-CoA metabolic process1.90e-03
FLT3GO:0006739NADP metabolic process3.10e-03
FLT3GO:0035384thioester biosynthetic process3.10e-03
FLT3GO:0071616acyl-CoA biosynthetic process3.10e-03
FLT3GO:0033866nucleoside bisphosphate biosynthetic process3.95e-03
FLT3GO:0034030ribonucleoside bisphosphate biosynthetic process3.95e-03
FLT3GO:0034033purine nucleoside bisphosphate biosynthetic process3.95e-03
FLT3GO:0006081cellular aldehyde metabolic process5.45e-03
FLT3GO:0019362pyridine nucleotide metabolic process6.28e-03
FLT3GO:0046496nicotinamide nucleotide metabolic process6.28e-03
FLT3GO:0072524pyridine-containing compound metabolic process6.94e-03
FLT3GO:0043648dicarboxylic acid metabolic process7.79e-03
FLT3GO:0006637acyl-CoA metabolic process7.79e-03
FLT3GO:0035383thioester metabolic process7.79e-03
FLT3GO:0006090pyruvate metabolic process1.13e-02
FLT3GO:0033865nucleoside bisphosphate metabolic process1.14e-02
FLT3GO:0033875ribonucleoside bisphosphate metabolic process1.14e-02
FLT3GO:0034032purine nucleoside bisphosphate metabolic process1.14e-02
FLT3GO:0046887positive regulation of hormone secretion1.39e-02
FLT3GO:0045834positive regulation of lipid metabolic process1.43e-02
FLT3GO:1902652secondary alcohol metabolic process1.48e-02
FLT3GO:0044272sulfur compound biosynthetic process1.65e-02
FLT3GO:0050796regulation of insulin secretion1.68e-02
FLT3GO:0050731positive regulation of peptidyl-tyrosine phosphorylation1.69e-02
FLT3GO:0046890regulation of lipid biosynthetic process2.03e-02
FLT3GO:0006006glucose metabolic process2.03e-02
FLT3GO:0090276regulation of peptide hormone secretion2.03e-02
FLT3GO:0002791regulation of peptide secretion2.03e-02
FLT3GO:0030073insulin secretion2.03e-02
FLT3GO:0090087regulation of peptide transport2.03e-02
FLT3GO:0009152purine ribonucleotide biosynthetic process2.25e-02
FLT3GO:0009260ribonucleotide biosynthetic process2.49e-02
FLT3GO:0050730regulation of peptidyl-tyrosine phosphorylation2.49e-02
FLT3GO:0019318hexose metabolic process2.49e-02
FLT3GO:0046390ribose phosphate biosynthetic process2.49e-02
FLT3GO:0030072peptide hormone secretion2.56e-02
FLT3GO:0002790peptide secretion2.59e-02
FLT3GO:0046883regulation of hormone secretion2.59e-02

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Related Drugs to CHRM3_FLT3


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 CHRM3-FLT3 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 CHRM3_FLT3


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