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Links from GEO Profiles

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    Ntrk3 neurotrophic tyrosine kinase, receptor, type 3 [ Mus musculus (house mouse) ]

    Gene ID: 18213, updated on 4-Jan-2025

    Summary

    Official Symbol
    Ntrk3provided by MGI
    Official Full Name
    neurotrophic tyrosine kinase, receptor, type 3provided by MGI
    Primary source
    MGI:MGI:97385
    See related
    Ensembl:ENSMUSG00000059146 AllianceGenome:MGI:97385
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    TrkC; Ntrk3_tv3
    Summary
    Predicted to enable several functions, including GPI-linked ephrin receptor activity; neurotrophin binding activity; and p53 binding activity. Involved in circadian rhythm. Acts upstream of or within several processes, including neurogenesis; neuronal action potential propagation; and positive regulation of nervous system development. Located in cytoplasm. Is expressed in several structures, including alimentary system; cardiovascular system; central nervous system; genitourinary system; and peripheral nervous system. Human ortholog(s) of this gene implicated in adenoid cystic carcinoma; colorectal cancer; and stomach cancer. Orthologous to human NTRK3 (neurotrophic receptor tyrosine kinase 3). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Broad expression in cerebellum adult (RPKM 7.6), CNS E18 (RPKM 6.3) and 16 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Ntrk3 in Genome Data Viewer
    Location:
    7 D2; 7 44.01 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (77825711..78228865, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (78179986..78581034, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53379 Neighboring gene STARR-seq mESC enhancer starr_19249 Neighboring gene predicted gene, 46012 Neighboring gene STARR-seq mESC enhancer starr_19250 Neighboring gene STARR-seq mESC enhancer starr_19253 Neighboring gene RIKEN cDNA E430016F16 gene Neighboring gene predicted gene, 39038 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:85742416-85742525 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:85743135-85743322 Neighboring gene predicted gene 9885 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:85866362-85866683 Neighboring gene predicted gene, 30892

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Targeted (9)  1 citation

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by MGI

    Items 1 - 25 of 26
    Function Evidence Code Pubs
    enables ATP binding  
    enables GPI-linked ephrin receptor activity  
    enables GPI-linked ephrin receptor activity  
    enables boss receptor activity  
    enables brain-derived neurotrophic factor receptor activity  
    enables epidermal growth factor receptor activity  
    enables fibroblast growth factor receptor activity  
    enables hepatocyte growth factor receptor activity  
    enables histone H2AXY142 kinase activity  
    enables histone H3Y41 kinase activity  
    enables insulin receptor activity  
    enables insulin-like growth factor receptor activity  
    enables macrophage colony-stimulating factor receptor activity  
    enables neurotrophin binding  
    enables neurotrophin receptor activity  
    enables neurotrophin receptor activity  
    enables p53 binding  
    enables placental growth factor receptor activity  
    enables platelet-derived growth factor alpha-receptor activity  
    enables platelet-derived growth factor beta-receptor activity  
    enables protein binding PubMed 
    enables protein tyrosine kinase collagen receptor activity  
    enables stem cell factor receptor activity  
    enables transmembrane receptor protein tyrosine kinase activity  
    enables transmembrane-ephrin receptor activity  
    enables vascular endothelial growth factor receptor activity  
    Items 1 - 25 of 26
    Items 1 - 25 of 49
    Process Evidence Code Pubs
    involved_in Kit signaling pathway  
    involved_in activation of GTPase activity  
    acts_upstream_of activation of protein kinase B activity  
    acts_upstream_of axon extension involved in regeneration PubMed 
    involved_in brain-derived neurotrophic factor receptor signaling pathway  
    involved_in cell surface receptor protein tyrosine kinase signaling pathway  
    involved_in cell surface receptor protein tyrosine kinase signaling pathway  
    involved_in cellular response to nerve growth factor stimulus  
    involved_in chromatin remodeling  
    involved_in circadian rhythm PubMed 
    involved_in collagen-activated tyrosine kinase receptor signaling pathway  
    involved_in ephrin receptor signaling pathway  
    involved_in epidermal growth factor receptor signaling pathway  
    involved_in fibroblast growth factor receptor signaling pathway  
    involved_in heart development  
    involved_in heart development  
    involved_in hepatocyte growth factor receptor signaling pathway  
    involved_in insulin receptor signaling pathway  
    involved_in insulin-like growth factor receptor signaling pathway  
    acts_upstream_of_or_within lens fiber cell differentiation PubMed 
    involved_in macrophage colony-stimulating factor signaling pathway  
    acts_upstream_of_or_within mechanoreceptor differentiation PubMed 
    involved_in multicellular organism development  
    acts_upstream_of_or_within myelination in peripheral nervous system PubMed 
    involved_in negative regulation of astrocyte differentiation  
    involved_in negative regulation of protein phosphorylation  
    involved_in neuron fate specification  
    involved_in neuron migration  
    acts_upstream_of_or_within neuronal action potential propagation PubMed 
    involved_in neurotrophin signaling pathway  
    involved_in platelet-derived growth factor receptor-alpha signaling pathway  
    involved_in platelet-derived growth factor receptor-beta signaling pathway  
    acts_upstream_of positive regulation of MAP kinase activity  
    acts_upstream_of_or_within positive regulation of apoptotic process PubMed 
    acts_upstream_of_or_within positive regulation of axon extension involved in regeneration PubMed 
    involved_in positive regulation of cell migration  
    involved_in positive regulation of cell population proliferation  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of neuron projection development  
    involved_in positive regulation of neuron projection development  
    involved_in positive regulation of peptidyl-serine phosphorylation  
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
    involved_in positive regulation of positive chemotaxis  
    acts_upstream_of_or_within positive regulation of synapse assembly PubMed 
    involved_in postsynaptic density assembly  
    involved_in regulation of neural precursor cell proliferation  
    involved_in regulation of presynapse assembly  
    involved_in vascular endothelial growth factor receptor-1 signaling pathway  
    involved_in vascular endothelial growth factor signaling pathway  
    Items 1 - 25 of 49
    Component Evidence Code Pubs
    is_active_in axon  
    located_in cytoplasm PubMed 
    located_in cytosol  
    is_active_in glutamatergic synapse  
    located_in mitochondrial outer membrane  
    is_active_in plasma membrane  
    located_in plasma membrane  
    is_active_in postsynaptic membrane  
    part_of receptor complex  
    part_of receptor complex PubMed 

    General protein information

    Preferred Names
    NT-3 growth factor receptor
    Names
    GP145-TrkC
    neurotrophin-3
    trk-C
    trkC tyrosine kinase
    NP_032772.3
    NP_877961.1
    XP_006540755.1
    XP_011249119.1
    XP_036008659.1
    XP_036008660.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_008746.5NP_032772.3  NT-3 growth factor receptor isoform a precursor

      See identical proteins and their annotated locations for NP_032772.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AC108420, AC115868, AC121082, AK164887
      Consensus CDS
      CCDS21371.1
      UniProtKB/Swiss-Prot
      A4QPD0, Q6VNS1, Q9Z2P9, Q9Z2Q0
      UniProtKB/TrEMBL
      A0A0A6YWL7
      Related
      ENSMUSP00000037909.8, ENSMUST00000039431.14
      Conserved Domains (7) summary
      cd05094
      Location:532818
      PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C
      sd00031
      Location:105128
      LRR_1; leucine-rich repeat [structural motif]
      pfam00047
      Location:214299
      ig; Immunoglobulin domain
      pfam13855
      Location:103160
      LRR_8; Leucine rich repeat
      pfam16920
      Location:163208
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cd00096
      Location:218221
      Ig; Ig strand A' [structural motif]
      cd04971
      Location:304396
      IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
    2. NM_182809.2NP_877961.1  NT-3 growth factor receptor isoform b precursor

      See identical proteins and their annotated locations for NP_877961.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the CDS and the 3' UTR, compared to variant 1. This results in a shorter isoform (b) with a distinct C-terminus, compared to isoform a.
      Source sequence(s)
      AC121082, AF035400, BE950984
      Consensus CDS
      CCDS21372.1
      UniProtKB/Swiss-Prot
      Q6VNS1
      Related
      ENSMUSP00000038324.8, ENSMUST00000039438.9
      Conserved Domains (7) summary
      sd00031
      Location:105128
      LRR_1; leucine-rich repeat [structural motif]
      pfam00047
      Location:214299
      ig; Immunoglobulin domain
      pfam01462
      Location:3151
      LRRNT; Leucine rich repeat N-terminal domain
      pfam13855
      Location:103160
      LRR_8; Leucine rich repeat
      pfam16920
      Location:163208
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cd00096
      Location:218221
      Ig; Ig strand A' [structural motif]
      cd04971
      Location:304396
      IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      77825711..78228865 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152766.1XP_036008659.1  NT-3 growth factor receptor isoform X1

      UniProtKB/TrEMBL
      A0A0A6YWL7
      Conserved Domains (7) summary
      cd05094
      Location:532843
      PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C
      sd00031
      Location:105128
      LRR_1; leucine-rich repeat [structural motif]
      pfam00047
      Location:214299
      ig; Immunoglobulin domain
      pfam13855
      Location:103160
      LRR_8; Leucine rich repeat
      pfam16920
      Location:163208
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cd00096
      Location:218221
      Ig; Ig strand A' [structural motif]
      cd04971
      Location:304396
      IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
    2. XM_011250817.4XP_011249119.1  NT-3 growth factor receptor isoform X2

      See identical proteins and their annotated locations for XP_011249119.1

      UniProtKB/TrEMBL
      A0A0A6YWF9, A0A0A6YWL7
      Related
      ENSMUSP00000141534.2, ENSMUST00000193002.6
      Conserved Domains (7) summary
      cd05094
      Location:532832
      PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C
      sd00031
      Location:105128
      LRR_1; leucine-rich repeat [structural motif]
      pfam00047
      Location:214299
      ig; Immunoglobulin domain
      pfam13855
      Location:103160
      LRR_8; Leucine rich repeat
      pfam16920
      Location:163208
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cd00096
      Location:218221
      Ig; Ig strand A' [structural motif]
      cd04971
      Location:304396
      IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
    3. XM_036152767.1XP_036008660.1  NT-3 growth factor receptor isoform X3

      Conserved Domains (5) summary
      cd05094
      Location:362673
      PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C
      pfam00047
      Location:44129
      ig; Immunoglobulin domain
      pfam16920
      Location:138
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cd00096
      Location:4851
      Ig; Ig strand A' [structural motif]
      cd04971
      Location:134226
      IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
    4. XM_006540692.4XP_006540755.1  NT-3 growth factor receptor isoform X4

      Conserved Domains (6) summary
      cd04971
      Location:319396
      Ig_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB and TrkC
      cd04972
      Location:211301
      Ig_TrkABC_d4; Fourth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB and TrkC
      smart00013
      Location:3156
      LRRNT; Leucine rich repeat N-terminal domain
      sd00031
      Location:105128
      LRR_1; leucine-rich repeat [structural motif]
      pfam13855
      Location:104160
      LRR_8; Leucine rich repeat
      pfam16920
      Location:163208
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    RNA

    1. XR_004934039.1 RNA Sequence

    2. XR_004934035.1 RNA Sequence

    3. XR_004934040.1 RNA Sequence

    4. XR_004934038.1 RNA Sequence

    5. XR_004934034.1 RNA Sequence

    6. XR_004934036.1 RNA Sequence

    7. XR_004934037.1 RNA Sequence

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