ntn1a netrin 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ntn1aprovided by ZNC
Official Full Name: netrin 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-169
See related: Ensembl:ENSDARG00000105112 AllianceGenome:ZFIN:ZDB-GENE-990415-169
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: net2; ntn2; zgc:136732
Summary: Acts upstream of or within several processes, including circulatory system development; closure of optic fissure; and neuron differentiation. Predicted to be located in cytoplasm and extracellular region. Predicted to be active in basement membrane. Is expressed in several structures, including brain; head; optic cup; optic vesicle; and somite. Human ortholog(s) of this gene implicated in congenital mirror movement disorder. Orthologous to human NTN1 (netrin 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 6

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (19804048..19926785, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (23332727..23455464, complement)

Chromosome 6 - NC_007117.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Careful phenotyping of patients combined with molecular and functional studies in zebrafish identifed netrin-1 as a potential shared genetic factor for cardiac and thyroid congenital defects.
Title: Functional zebrafish studies based on human genotyping point to netrin-1 as a link between aberrant cardiovascular development and thyroid dysgenesis.
These findings implicate Netrins as the only known attractants for olfactory sensory neurons.
Title: Netrin/DCC signaling guides olfactory sensory axons to their correct location in the olfactory bulb.
Netrin 1a is an intermediate target-derived signal that causes two equivalent motoneurons to adopt distinct fates
Title: Netrin signaling breaks the equivalence between two identified zebrafish motoneurons revealing a new role of intermediate targets.
Data show that zebrafish Netrin 1a directs Dcc-mediated axon guidance of motoneurons and that this neural guidance function is essential for lymphangiogenesis.
Title: Motoneurons are essential for vascular pathfinding.
Netrin-1 acts as a survival factor for endothelial cells, blocking the proapoptotic effect of the dependence receptor UNC5B and its downstream death signaling effector, the serine/threonine kinase DAPK.
Title: Inhibition of endothelial cell apoptosis by netrin-1 during angiogenesis.
First evidence that Netrin/DCC axon guidance molecules act in dendrites in a vertebrate system.
Title: Netrin/DCC signaling controls contralateral dendrites of octavolateralis efferent neurons.
suppression of netrin1a messenger RNA in zebrafish inhibits vascular sprouting, implying a proangiogenic role for netrins during vertebrate development
Title: Netrins promote developmental and therapeutic angiogenesis.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in animal organ morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within anterior commissure morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior commissure morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within anterior/posterior axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within axon extension involved in axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within branching involved in blood vessel morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within closure of optic fissure	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendrite development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within dendrite development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart jogging	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in motor neuron axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within olfactory bulb axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within olfactory bulb axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pharyngeal arch artery morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of axon extension	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within thyroid gland development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tissue development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vasculature development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ventral aorta development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in basement membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: netrin-1a

Names: net1a; netrin 2

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_131029.2 → NP_571104.1 netrin-1a precursor

See identical proteins and their annotated locations for NP_571104.1

Status: VALIDATED

Source sequence(s)

BX255899

UniProtKB/TrEMBL

A0A0R4IJU7, A0A0R4IX76, O42140

Related

ENSDARP00000133934.1, ENSDART00000157527.2

Conserved Domains (4) summary

smart00136
Location:45 → 282

LamNT; Laminin N-terminal domain (domain VI)

cd00055
Location:402 → 450

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:486 → 600

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:340 → 393

Laminin_EGF; Laminin EGF domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007117.7 Reference GRCz11 Primary Assembly

Range

19804048..19926785 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021476776.2 → XP_021332451.1 netrin-1a isoform X1

UniProtKB/TrEMBL

A0A8M9QA53

Conserved Domains (4) summary

smart00136
Location:45 → 282

LamNT; Laminin N-terminal domain (domain VI)

cd00055
Location:283 → 328

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:436 → 550

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:340 → 393

Laminin_EGF; Laminin EGF domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

NW_018394639.1 Reference GRCz11 ALT_DRER_TU_1

Range

39274..162608 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001040038.1: Suppressed sequence

Description

NM_001040038.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.