Ntn1 netrin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ntn1provided by RGD
Official Full Name: netrin 1provided by RGD
Primary source: RGD:619809
See related: Ensembl:ENSRNOG00000003947 AllianceGenome:RGD:619809
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: netrin-1
Summary: Predicted to enable cytokine activity. Involved in several processes, including Cdc42 protein signal transduction; positive regulation of axon extension; and substrate-dependent cell migration, cell extension. Located in extracellular matrix. Human ortholog(s) of this gene implicated in congenital mirror movement disorder. Orthologous to human NTN1 (netrin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 137.9), Heart (RPKM 113.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q24

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (53398852..53597595, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (52899933..53098591, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (54761925..54982072, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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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?

Netrin-1 Role in Nociceptive Neuron Sprouting through Activation of DCC Signaling in a Rat Model of Bone Cancer Pain.
Title: Netrin-1 Role in Nociceptive Neuron Sprouting through Activation of DCC Signaling in a Rat Model of Bone Cancer Pain.
Netrin-1 attenuates cerebral ischemia/reperfusion injury by limiting mitochondrial ROS and Ca[2+] levels via activation of AKT phosphorylation and mitochondrial m-AAA protease AFG3L2.
Title: Netrin-1 attenuates cerebral ischemia/reperfusion injury by limiting mitochondrial ROS and Ca(2+) levels via activation of AKT phosphorylation and mitochondrial m-AAA protease AFG3L2.
Netrin-1 as a Multitarget Barrier Stabilizer in the Peripheral Nerve after Injury.
Title: Netrin-1 as a Multitarget Barrier Stabilizer in the Peripheral Nerve after Injury.
Neuroprotection of netrin-1 on neurological recovery via Wnt/beta-catenin signaling pathway after spinal cord injury.
Title: Neuroprotection of netrin-1 on neurological recovery via Wnt/β-catenin signaling pathway after spinal cord injury.
Suppression of Netrin-1 attenuates angiotension II-induced cardiac remodeling through the PKC/MAPK signaling pathway.
Title: Suppression of Netrin-1 attenuates angiotension II-induced cardiac remodeling through the PKC/MAPK signaling pathway.
Inhibition of vascular adventitial remodeling by netrin-1 in diabetic rats.
Title: Inhibition of vascular adventitial remodeling by netrin-1 in diabetic rats.
Aerobic exercise increased levels of serum netrin-1, myocardial netrin-1, and the DCC receptor and reduced the expression of myocardial MMP2 and MMP9 proteins, to improve the degree of fibrosis following myocardial infarction in rats.
Title: Netrin-1 plays a role in the effect of moderate exercise on myocardial fibrosis in rats.
miRs let-7 and miR-9 are involved in regulating neuron pathfinding and extend our understanding of the regulatory pathways active during peripheral nerve regeneration
Title: The microRNAs let-7 and miR-9 down-regulate the axon-guidance genes Ntn1 and Dcc during peripheral nerve regeneration.
Severed distal axons signal back to the cell body to induce hyperexcitability, loss of inhibition and enhanced presynaptic release through netrin-1.
Title: Distal axotomy enhances retrograde presynaptic excitability onto injured pyramidal neurons via trans-synaptic signaling.
Netrin-1 overexpression increased neurobehavioral test scores and reduced cerebral infarct volume following middle cerebral artery occlusion via inhibition of the Notch1 signaling pathway.
Title: Netrin-1 overexpression improves neurobehavioral outcomes and reduces infarct size via inhibition of the notch1 pathway following experimental stroke.

Submit: New GeneRIF Correction See all GeneRIFs (34)

General gene information

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Markers

AU046514 (e-PCR)
- UniSTS:111378

ha2998 (e-PCR)
- UniSTS:515619

Ntn1 (e-PCR), detects polymorphism
- UniSTS:547910

D10Rat59 (e-PCR), detects polymorphism
- UniSTS:226382

NZPR1680 (e-PCR), detects polymorphism
- UniSTS:516230

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cytokine activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in B cell mediated immunity	ISS Inferred from Sequence or Structural Similarity more info
involved_in B cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in Cdc42 protein signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in Ras protein signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in T cell mediated immunity	ISS Inferred from Sequence or Structural Similarity more info
involved_in animal organ morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in anterior/posterior axon guidance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within anterior/posterior axon guidance	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	NAS Non-traceable Author Statement more info	PubMed
acts_upstream_of_or_within axonogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in chemorepulsion of axon	IEA Inferred from Electronic Annotation more info
involved_in chemorepulsion of axon	ISO Inferred from Sequence Orthology more info
involved_in chemorepulsion of axon	ISS Inferred from Sequence or Structural Similarity more info
involved_in dendrite development	IBA Inferred from Biological aspect of Ancestor more info
involved_in glial cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of glial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in inner ear morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inner ear morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary gland development	ISO Inferred from Sequence Orthology more info
involved_in mammary gland duct morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mammary gland duct morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	IBA Inferred from Biological aspect of Ancestor more info
involved_in motor neuron migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within motor neuron migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon extension	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of axon extension	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron migration	ISO Inferred from Sequence Orthology more info
involved_in nuclear migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nuclear migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of axon extension	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of axon extension	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of axon extension	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell motility	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of glial cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of glial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of glial cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of glial cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in substrate-dependent cell migration, cell extension	IDA Inferred from Direct Assay more info	PubMed
involved_in tissue development	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in actin cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
is_active_in basement membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in basement membrane	IEA Inferred from Electronic Annotation more info
located_in basement membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: netrin-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_053731.3 → NP_446183.2 netrin-1 precursor

See identical proteins and their annotated locations for NP_446183.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/Swiss-Prot

Q924Z9

UniProtKB/TrEMBL

F1LPC8

Related

ENSRNOP00000005255.4, ENSRNOT00000005255.4

Conserved Domains (4) summary

smart00136
Location:46 → 283

LamNT; Laminin N-terminal domain (domain VI)

cd00055
Location:284 → 329

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

cd03579
Location:487 → 601

NTR_netrin-1_like; NTR domain, Netrin-1-like subfamily; The C-terminal NTR domain of netrins is also called domain C in the context of C. elegans netrin UNC-6. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration ...

pfam00053
Location:404 → 441

Laminin_EGF; Laminin EGF domain

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_086028.1 Reference GRCr8

Range

53398852..53597595 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006246568.5 → XP_006246630.1 netrin-1 isoform X1

See identical proteins and their annotated locations for XP_006246630.1

UniProtKB/Swiss-Prot

Q924Z9

UniProtKB/TrEMBL

F1LPC8

Conserved Domains (4) summary

smart00136
Location:46 → 283

LamNT; Laminin N-terminal domain (domain VI)

cd00055
Location:284 → 329

EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...

cd03579
Location:487 → 601

NTR_netrin-1_like; NTR domain, Netrin-1-like subfamily; The C-terminal NTR domain of netrins is also called domain C in the context of C. elegans netrin UNC-6. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration ...

pfam00053
Location:404 → 441

Laminin_EGF; Laminin EGF domain