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ntn1a netrin 1a [ Danio rerio (zebrafish) ]

Gene ID: 30227, updated on 10-Nov-2024

Summary

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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

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See ntn1a in Genome Data Viewer
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_007117.7Genomic Context describing neighboring genes Neighboring gene cilia and flagella associated protein 52 Neighboring gene uncharacterized LOC137490206 Neighboring gene syntaxin 8 Neighboring gene phosphoinositide-3-kinase, regulatory subunit 5 Neighboring gene serine/threonine-protein kinase pim-3 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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Related articles in PubMed

  1. Peptidomic analysis of zebrafish embryos exposed to polychlorinated biphenyls and their impact on eye development. Jiang Y, et al. Ecotoxicol Environ Saf, 2019 Jul 15. PMID 30897415
  2. The functional variant of NTN1 contributes to the risk of nonsyndromic cleft lip with or without cleft palate. Li D, et al. Eur J Hum Genet, 2020 Apr. PMID 31780810, Free PMC Article
  3. Netrins promote developmental and therapeutic angiogenesis. Wilson BD, et al. Science, 2006 Aug 4. PMID 16809490, Free PMC Article
  4. Schwann cells and deleted in colorectal carcinoma direct regenerating motor axons towards their original path. Rosenberg AF, et al. J Neurosci, 2014 Oct 29. PMID 25355219, Free PMC Article
  5. An amphioxus netrin gene is expressed in midline structures during embryonic and larval development. Shimeld S. Dev Genes Evol, 2000 Jul. PMID 11180840

See all (58) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
  3. 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.
  4. 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.
  5. 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.
  6. 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.
  7. 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.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC136732

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)

  1. 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

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    19804048..19926785 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. 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

  1. NW_018394639.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    39274..162608 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. 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.
Nucleotide Protein Strain
Heading Accession and Version

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