Ntrk3 neurotrophic receptor tyrosine kinase 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ntrk3provided by RGD
Official Full Name: neurotrophic receptor tyrosine kinase 3provided by RGD
Primary source: RGD:3214
See related: Ensembl:ENSRNOG00000018674 AllianceGenome:RGD:3214
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: trkC
Summary: Enables GPI-linked ephrin receptor activity. Involved in several processes, including cellular response to retinoic acid; generation of neurons; and regulation of synapse assembly. Located in cytoplasm and plasma membrane. Is active in glutamatergic synapse. Is integral component of postsynaptic membrane. 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: Biased expression in Brain (RPKM 154.8), Adrenal (RPKM 34.0) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q31

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (141526192..141913575, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (132116472..132503849, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (139890537..140262503, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

P75NTR Exacerbates SCI-induced Mitochondrial Damage and Neuronal Apoptosis Depending on NTRK3.
Title: P75NTR Exacerbates SCI-induced Mitochondrial Damage and Neuronal Apoptosis Depending on NTRK3.
Data show that 5-Aza-dc reversed the alcohol-induced downregulation of neurotrophin-3 (Ntf3), correspondingly the expression of its receptor-neurotrophic receptor tyrosine kinase 3 (TrkC) was reduced.
Title: 5-Aza-2'-deoxycytidine in the medial prefrontal cortex regulates alcohol-related behavior and Ntf3-TrkC expression in rats.
It has been shown that ischemia influenced the expression of neurotrophins (Bdnf, Ngf, Nt-3) and their receptors (TrkB, TrkA, TrkC, p75) in brain structures outside the lesion focus, including the contralateral hemisphere.
Title: [Effects of ischemia on the expression of neurotrophins and their receptors in rat brain structures outside the lesion site, including on the opposite hemisphere].
Neurotrophin 3 -triggered TrkC seems to provide apparently stronger than nerve growth factor -triggered TrkA signal for neurite elongation in differentiating PC12 cells.
Title: Establishment of a cellular model to study TrkC-dependent neuritogenesis.
Study suggests a role for genes responsible for neural plasticity (NTRK3 and BDNF) in the pathophysiology of depression, emphasizing hemispheric asymmetry in the level of gene expression
Title: Asymmetrical expression of BDNF and NTRK3 genes in frontoparietal cortex of stress-resilient rats in an animal model of depression.
IGF-1 might relieve the dideoxycytidine-induced toxicity of TrkA- and TrkB-, but not TrkC-expressing dorsal root ganglion neurons.
Title: Insulin-like growth factor-1 prevents dorsal root ganglion neuronal tyrosine kinase receptor expression alterations induced by dideoxycytidine in vitro.
Data suggest that neurotrophins can promote cell viability through Trk receptors in a manner depending on basal neutral sphingomyelinase (nSMase) but not through SMase activity enhancement.
Title: Trk receptors need neutral sphingomyelinase activity to promote cell viability.
After nerve injury, tyrosine kinase C expression is increased in small dorsal root ganglionic cells of allodynic animals and the medium- and large-size nonallodynic animals' cells.
Title: Neurotrophin-3 and tyrosine kinase C have modulatory effects on neuropathic pain in the rat dorsal root ganglia.
Transplantation of overexpressing neurotrophin-3-Schwann cells + trkC-neural stem cells in Gelfoam into the lesion gap immediately following injury results in significantly improved relay of the cortical motor evoked potential.
Title: Cograft of neural stem cells and schwann cells overexpressing TrkC and neurotrophin-3 respectively after rat spinal cord transection.
These results suggest that specific neurotrophins and trkA, B, and C receptors may contribute differentially to the survival and regenerative responses of extraocular motoneurons after lesion.
Title: Differential regulation of the expression of neurotrophin receptors in rat extraocular motoneurons after lesion.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D1Mco67 (e-PCR)
- UniSTS:518476

D1UIA12 (e-PCR)
- UniSTS:239693

Ntrk3 (e-PCR), detects polymorphism
- UniSTS:463954

BE106688 (e-PCR)
- UniSTS:246364

Ntrk3 (e-PCR), detects polymorphism
- UniSTS:265607

Ntrk3 (e-PCR), detects polymorphism
- UniSTS:265608

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables GPI-linked ephrin receptor activity	IDA Inferred from Direct Assay more info	PubMed
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	IEA Inferred from Electronic Annotation more info
enables neurotrophin receptor activity	ISO Inferred from Sequence Orthology more info
enables p53 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 transmembrane receptor protein serine/threonine kinase activity	TAS Traceable Author Statement 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
acts_upstream_of axon extension involved in regeneration	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor protein serine/threonine kinase signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nerve growth factor stimulus	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to retinoic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in cochlea development	IEP Inferred from Expression Pattern more info	PubMed
involved_in ephrin receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in heart development	IEA Inferred from Electronic Annotation more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lens fiber cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mechanoreceptor differentiation	ISO Inferred from Sequence Orthology more info
involved_in multicellular organism development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within myelination in peripheral nervous system	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of astrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in neuron fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuronal action potential propagation	ISO Inferred from Sequence Orthology more info
involved_in neurotrophin signaling pathway	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_or_within positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of axon extension involved in regeneration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IEA Inferred from Electronic Annotation 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	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of peptidyl-serine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of positive chemotaxis	IEA Inferred from Electronic Annotation 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	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic density assembly	EXP Inferred from Experiment more info	PubMed
involved_in postsynaptic density assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of neural precursor cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of presynapse assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of presynapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to axon injury	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to corticosterone	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi membrane	TAS Traceable Author Statement more info
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor 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	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic membrane	IMP Inferred from Mutant Phenotype more info	PubMed
part_of receptor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of receptor complex	IEA Inferred from Electronic Annotation more info
part_of receptor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: NT-3 growth factor receptor

Names: GP145-TrkC; neural receptor protein-tyrosine kinase (trkC); neurotrophic tyrosine kinase, receptor, type 3; trk-C; trkC tyrosine kinase

NP_001257584.1

EC 2.7.10.1

NP_001257585.1

EC 2.7.10.1

NP_062121.1

EC 2.7.10.1

XP_008757735.1

EC 2.7.10.1

XP_038965559.1

EC 2.7.10.1

XP_038965566.1

EC 2.7.10.1

XP_063143774.1

EC 2.7.10.1

XP_063143787.1

EC 2.7.10.1

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)

NM_001270655.1 → NP_001257584.1 NT-3 growth factor receptor isoform 2 precursor

See identical proteins and their annotated locations for NP_001257584.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

L03813, L14446

UniProtKB/TrEMBL

A0A8L2ULV7

Related

ENSRNOP00000049463.1, ENSRNOT00000045165.4

Conserved Domains (7) summary

cd05094
Location:532 → 832

PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
NM_001270656.1 → NP_001257585.1 NT-3 growth factor receptor isoform 1 precursor

See identical proteins and their annotated locations for NP_001257585.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcritp and encodes the longest isoform (1).

Source sequence(s)

L03813, L14447

UniProtKB/Swiss-Prot

Q03351

UniProtKB/TrEMBL

A0A8L2ULV7

Related

ENSRNOP00000044402.5, ENSRNOT00000046849.6

Conserved Domains (8) summary

cd05094
Location:532 → 857

PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam01462
Location:31 → 51

LRRNT; Leucine rich repeat N-terminal domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
NM_019248.2 → NP_062121.1 NT-3 growth factor receptor isoform 3 precursor

See identical proteins and their annotated locations for NP_062121.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two alternate in-frame exons compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

L03813, L14445

UniProtKB/TrEMBL

A0A8L2ULV7

Related

ENSRNOP00000046059.1, ENSRNOT00000041839.4

Conserved Domains (7) summary

cd05094
Location:532 → 818

PTKc_TrkC; Catalytic domain of the Protein Tyrosine Kinase, Tropomyosin Related Kinase C

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

141526192..141913575 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287704.1 → XP_063143774.1 NT-3 growth factor receptor isoform X1
XM_039109638.2 → XP_038965566.1 NT-3 growth factor receptor isoform X4

UniProtKB/TrEMBL

A0A8I6ALQ4

Conserved Domains (8) summary

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam01462
Location:31 → 51

LRRNT; Leucine rich repeat N-terminal domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains

cl21453
Location:532 → 572

PKc_like; Protein Kinases, catalytic domain
XM_039109631.2 → XP_038965559.1 NT-3 growth factor receptor isoform X2

UniProtKB/TrEMBL

A0A8I6ALQ4

Related

ENSRNOP00000096233.1

Conserved Domains (8) summary

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam01462
Location:31 → 51

LRRNT; Leucine rich repeat N-terminal domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains

cl21453
Location:532 → 572

PKc_like; Protein Kinases, catalytic domain
XM_008759513.4 → XP_008757735.1 NT-3 growth factor receptor isoform X3

See identical proteins and their annotated locations for XP_008757735.1

UniProtKB/TrEMBL

A0A8I6ALQ4, Q68G04

Related

ENSRNOP00000025536.4

Conserved Domains (7) summary

sd00031
Location:105 → 128

LRR_1; leucine-rich repeat [structural motif]

pfam00047
Location:214 → 299

ig; Immunoglobulin domain

pfam01462
Location:31 → 51

LRRNT; Leucine rich repeat N-terminal domain

pfam13855
Location:103 → 160

LRR_8; Leucine rich repeat

pfam16920
Location:163 → 208

TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

cd00096
Location:218 → 221

Ig; Ig strand A' [structural motif]

cd04971
Location:304 → 396

IgI_TrKABC_d5; Fifth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB, and TrkC; member of the I-set of Ig superfamily (IgSF) domains
XM_063287717.1 → XP_063143787.1 NT-3 growth factor receptor isoform X3

UniProtKB/TrEMBL

Q68G04