Ntf3 neurotrophin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ntf3provided by RGD
Official Full Name: neurotrophin 3provided by RGD
Primary source: RGD:619728
See related: Ensembl:ENSRNOG00000019716 AllianceGenome:RGD:619728
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
Summary: Enables nerve growth factor binding activity. Involved in modulation of chemical synaptic transmission; nervous system development; and response to immobilization stress. Predicted to be located in cytoplasmic vesicle. Predicted to be active in several cellular components, including axon; dendrite; and synaptic vesicle. Biomarker of status epilepticus. Human ortholog(s) of this gene implicated in Alzheimer's disease and asthma. Orthologous to human NTF3 (neurotrophin 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 83.4), Spleen (RPKM 33.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (160601161..160670623, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (158914984..158984453, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (158636883..158705886, complement)

Chromosome 4 - NC_086022.1 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?

Repair effect of neurotrophic factor III (NT-3) on rats with spinal injury model and its mechanism.
Title: Repair effect of neurotrophic factor III (NT-3) on rats with spinal injury model and its mechanism.
Neurotrophin-3 into the insular cortex strengthens conditioned taste aversion memory.
Title: Neurotrophin-3 into the insular cortex strengthens conditioned taste aversion memory.
Electroacupuncture facilitates the integration of a grafted TrkC-modified mesenchymal stem cell-derived neural network into transected spinal cord in rats via increasing neurotrophin-3.
Title: Electroacupuncture facilitates the integration of a grafted TrkC-modified mesenchymal stem cell-derived neural network into transected spinal cord in rats via increasing neurotrophin-3.
Governor Vessel Electro-Acupuncture Promotes the Intrinsic Growth Ability of Spinal Neurons through Activating Calcitonin Gene-Related Peptide/alpha-Calcium/Calmodulin-Dependent Protein Kinase/Neurotrophin-3 Pathway after Spinal Cord Injury.
Title: Governor Vessel Electro-Acupuncture Promotes the Intrinsic Growth Ability of Spinal Neurons through Activating Calcitonin Gene-Related Peptide/α-Calcium/Calmodulin-Dependent Protein Kinase/Neurotrophin-3 Pathway after Spinal Cord Injury.
Controlling the Release of Neurotrophin-3 and Chondroitinase ABC Enhances the Efficacy of Nerve Guidance Conduits.
Title: Controlling the Release of Neurotrophin-3 and Chondroitinase ABC Enhances the Efficacy of Nerve Guidance Conduits.
Macrophage-derived neurotrophin-3 promotes heterotopic ossification in rats.
Title: Macrophage-derived neurotrophin-3 promotes heterotopic ossification in rats.
Effect of NT-3 on infection-induced memory impairment of neonatal rats.
Title: Effect of NT-3 on infection-induced memory impairment of neonatal rats.
Neurotrophin-3 promotes the endothelial-mesenchymal transition of heterotopic ossification in rats.
Title: Neurotrophin-3 acts on the endothelial-mesenchymal transition of heterotopic ossification in rats.
Injury site osteoblast-derived NT-3 is important in promoting growth plate injury site remodeling.
Title: Osteoblast derived-neurotrophin‑3 induces cartilage removal proteases and osteoclast-mediated function at injured growth plate in rats.
study suggests that NT-3 may be an osteogenic and angiogenic factor upstream of BMP-2 and VEGF in bony repair, and further studies are required to investigate whether NT-3 may be a potential target for preventing growth plate faulty bony repair or for promoting bone fracture healing.
Title: Neurotrophin-3 Induces BMP-2 and VEGF Activities and Promotes the Bony Repair of Injured Growth Plate Cartilage and Bone in Rats.

Submit: New GeneRIF Correction See all GeneRIFs (78)

General gene information

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Markers

AI835689 (e-PCR)
- UniSTS:179466

UniSTS:225313 (e-PCR)
- UniSTS:225313

AW535926 (e-PCR)
- UniSTS:261040

Ntf3 (e-PCR), detects polymorphism
- UniSTS:507105

PMC137548P1 (e-PCR)
- UniSTS:270840

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chemoattractant activity	IEA Inferred from Electronic Annotation more info
enables chemoattractant activity	ISO Inferred from Sequence Orthology more info
enables growth factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables growth factor activity	IEA Inferred from Electronic Annotation more info
enables growth factor activity	ISO Inferred from Sequence Orthology more info
enables nerve growth factor binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables nerve growth factor receptor binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology 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
acts_upstream_of_or_within enteric nervous system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epidermis development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within generation of neurons	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glial cell fate determination	ISO Inferred from Sequence Orthology more info
involved_in induction of positive chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in induction of positive chemotaxis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mechanoreceptor differentiation	ISO Inferred from Sequence Orthology more info
involved_in modulation of chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in modulation of chemical synaptic transmission	IDA Inferred from Direct Assay more info	PubMed
involved_in myelination	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of neuron apoptotic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in nerve development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within nerve development	ISO Inferred from Sequence Orthology more info
involved_in nerve growth factor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuromuscular synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron development	ISO Inferred from Sequence Orthology more info
involved_in neuron projection morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within peripheral nervous system development	ISO Inferred from Sequence Orthology more info
involved_in positive chemotaxis	IEA Inferred from Electronic Annotation 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 glial cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of peptidyl-serine phosphorylation	IBA Inferred from Biological aspect of Ancestor more info
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 peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of receptor internalization	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of receptor internalization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in response to immobilization stress	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within smooth muscle cell differentiation	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 cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in synaptic vesicle	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: neurotrophin-3

Names: HDNF; NGF-2; NT-3; nerve growth factor 2; neurotrophic factor; neurotrophin-3 (HDNF/NT-3)

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_001270868.1 → NP_001257797.1 neurotrophin-3 isoform 2 precursor

See identical proteins and their annotated locations for NP_001257797.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, compared to variant 1. The resulting isoform (2) is of the same size but has a distinct N-terminus, compared to isoform 1.

Source sequence(s)

BC070504, FM074856, JAXUCZ010000004, M34643

UniProtKB/TrEMBL

A0A0G2JVQ7, A6ILU9

Related

ENSRNOP00000069580.1, ENSRNOT00000082009.2

Conserved Domains (1) summary

pfam00243
Location:158 → 267

NGF; Nerve growth factor family
NM_001270869.1 → NP_001257798.1 neurotrophin-3 isoform 1 precursor

See identical proteins and their annotated locations for NP_001257798.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform (1).

Source sequence(s)

BC070504, FM101680, JAXUCZ010000004, M34643

UniProtKB/TrEMBL

A0A0G2JXV7, A6ILU9

Conserved Domains (1) summary

pfam00243
Location:158 → 267

NGF; Nerve growth factor family
NM_001270870.1 → NP_001257799.1 neurotrophin-3 isoform 3 precursor

See identical proteins and their annotated locations for NP_001257799.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an exon in the 5' region, which causes translation initiation at a downstream AUG, compared to variant 1. The resulting isoform (3) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

BC070504, EV778881, M34643

UniProtKB/Swiss-Prot

P18280, Q6NS33

UniProtKB/TrEMBL

A6ILU9

Related

ENSRNOP00000026685.3, ENSRNOT00000026685.6

Conserved Domains (1) summary

pfam00243
Location:145 → 254

NGF; Nerve growth factor family
NM_031073.3 → NP_112335.3 neurotrophin-3 isoform 1 precursor

See identical proteins and their annotated locations for NP_112335.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) is the longest transcript and encodes the longer isoform (1).

Source sequence(s)

BC070504, M34643

UniProtKB/TrEMBL

A0A0G2JXV7, A6ILU9

Related

ENSRNOP00000070420.1, ENSRNOT00000087115.2

Conserved Domains (1) summary

pfam00243
Location:158 → 267

NGF; Nerve growth factor family