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

Gene ID: 18213, updated on 8-Feb-2024

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. Acts upstream of or within several processes, including lens fiber cell differentiation; neurogenesis; and neuronal action potential propagation. 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, Apr 2022]
Expression
Broad expression in cerebellum adult (RPKM 7.6), CNS E18 (RPKM 6.3) and 16 other tissues See more
Orthologs
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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)
  • Targeted (9)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables GPI-linked ephrin receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables neurotrophin binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables neurotrophin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables neurotrophin receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables p53 binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein tyrosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
enables transmembrane receptor protein tyrosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables transmembrane receptor protein tyrosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in activation of GTPase activity ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of activation of protein kinase B activity ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of axon extension involved in regeneration IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to nerve growth factor stimulus IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in circadian rhythm IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in heart development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within lens fiber cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within mechanoreceptor differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within myelination in peripheral nervous system IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in negative regulation of astrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
more info
 
involved_in neuron fate specification ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within neuronal action potential propagation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within phosphorylation IEA
Inferred from Electronic Annotation
more info
 
NOT involved_in positive regulation of ERK1 and ERK2 cascade IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of positive regulation of MAP kinase activity ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of axon extension involved in regeneration IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of neuron projection development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of peptidyl-serine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of positive chemotaxis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of synapse assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in postsynaptic density assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in protein phosphorylation IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of neural precursor cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in regulation of presynapse assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in transmembrane receptor protein tyrosine kinase signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in transmembrane receptor protein tyrosine kinase signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
 
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in mitochondrial outer membrane TAS
Traceable Author Statement
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
is_active_in postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
 
part_of receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of receptor complex ISO
Inferred from Sequence Orthology
more info
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)

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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