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Aliases for NTN3 Gene

Aliases for NTN3 Gene

  • Netrin 3 2 3 5
  • Netrin-2-Like Protein 3 4
  • Netrin-3 2 3
  • NTN2L 3 4
  • Netrin-2, Chicken, Homolog Of, Like 3
  • Netrin 2 (Chicken)-Like 2
  • Netrin 2-Like (Chicken) 2

External Ids for NTN3 Gene

Previous HGNC Symbols for NTN3 Gene

  • NTN2L

Previous GeneCards Identifiers for NTN3 Gene

  • GC16P002462
  • GC16P002521

Summaries for NTN3 Gene

GeneCards Summary for NTN3 Gene

NTN3 (Netrin 3) is a Protein Coding gene. Among its related pathways are CDO in myogenesis and Axon guidance. GO annotations related to this gene include receptor binding. An important paralog of this gene is NTN1.

UniProtKB/Swiss-Prot for NTN3 Gene

  • Netrins control guidance of CNS commissural axons and peripheral motor axons.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NTN3 Gene

Genomics for NTN3 Gene

Regulatory Elements for NTN3 Gene

Enhancers for NTN3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16F002439 0.2 ENCODE 12.3 -31.1 -31098 0.8 POLR2A ZNF600 TBC1D24 NTN3 ABCA3 ABCA17P RNPS1 ECI1 MIR940 MIR6511B1 PKD1 GC16P002435
GH16F002423 0.8 Ensembl ENCODE 12 -48.2 -48199 0.6 WRNIP1 ZNF76 INSM2 ARID4B KLF17 RAD21 ZNF48 GLIS2 ZNF366 SCRT2 ABCA17P ABCA3 NTN3 TBC1D24 SNORD60 SNHG19 GC16P002427 GC16P002400
GH16F002364 0.8 Ensembl ENCODE 11.5 -105.8 -105826 3.2 PKNOX1 ESRRA TAL1 FEZF1 EBF1 ZIC2 RELA GATA3 ZFHX2 NCOR1 ABCA17P ABCA3 CCNF NTN3 TBC1D24 SRRM2-AS1 GC16M002363 GC16M002369
GH16F002467 0.9 FANTOM5 ENCODE 9.1 -1.8 -1805 5.4 HDGF PKNOX1 ARID4B SIN3A YBX1 FEZF1 DMAP1 ZNF2 YY1 ZNF143 SNORD60 ENSG00000260954 ENSG00000226890 ZNF597 ENSG00000200059 ENSG00000261240 ZNF598 THOC6 ENSG00000255513 TIGD7
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around NTN3 on UCSC Golden Path with GeneCards custom track

Promoters for NTN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001799017 -199 601 TBP HDGF HDAC1 ATF1 PKNOX1 ARID4B SIN3A ZEB1 GLIS2 EGR1

Genomic Location for NTN3 Gene

Chromosome:
16
Start:
2,471,499 bp from pter
End:
2,474,145 bp from pter
Size:
2,647 bases
Orientation:
Plus strand

Genomic View for NTN3 Gene

Genes around NTN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NTN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NTN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NTN3 Gene

Proteins for NTN3 Gene

  • Protein details for NTN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00634-NET3_HUMAN
    Recommended name:
    Netrin-3
    Protein Accession:
    O00634

    Protein attributes for NTN3 Gene

    Size:
    580 amino acids
    Molecular mass:
    61466 Da
    Quaternary structure:
    No Data Available

neXtProt entry for NTN3 Gene

Post-translational modifications for NTN3 Gene

  • Glycosylation at Asn 104 and Asn 387
  • Modification sites at PhosphoSitePlus

Other Protein References for NTN3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NTN3 Gene

Domains & Families for NTN3 Gene

Gene Families for NTN3 Gene

Suggested Antigen Peptide Sequences for NTN3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00634

UniProtKB/Swiss-Prot:

NET3_HUMAN :
  • Contains 3 laminin EGF-like domains.
Domain:
  • Contains 3 laminin EGF-like domains.
  • Contains 1 laminin N-terminal domain.
  • Contains 1 NTR domain.
genes like me logo Genes that share domains with NTN3: view

Function for NTN3 Gene

Molecular function for NTN3 Gene

UniProtKB/Swiss-Prot Function:
Netrins control guidance of CNS commissural axons and peripheral motor axons.

Gene Ontology (GO) - Molecular Function for NTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005102 receptor binding IEA --
GO:0005515 protein binding IPI 26190107
genes like me logo Genes that share ontologies with NTN3: view
genes like me logo Genes that share phenotypes with NTN3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for NTN3

miRNA for NTN3 Gene

miRTarBase miRNAs that target NTN3

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NTN3 Gene

Localization for NTN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NTN3 Gene

Secreted, extracellular space, extracellular matrix.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for NTN3 Gene COMPARTMENTS Subcellular localization image for NTN3 gene
Compartment Confidence
extracellular 4
golgi apparatus 2
cytosol 1
mitochondrion 1
nucleus 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for NTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005576 extracellular region IEA --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005794 Golgi apparatus IEA --
genes like me logo Genes that share ontologies with NTN3: view

Pathways & Interactions for NTN3 Gene

genes like me logo Genes that share pathways with NTN3: view

Pathways by source for NTN3 Gene

3 Reactome pathways for NTN3 Gene
1 KEGG pathway for NTN3 Gene

Gene Ontology (GO) - Biological Process for NTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007411 axon guidance NAS 9143507
genes like me logo Genes that share ontologies with NTN3: view

No data available for SIGNOR curated interactions for NTN3 Gene

Transcripts for NTN3 Gene

mRNA/cDNA for NTN3 Gene

(1) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(4) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for NTN3 Gene

Netrin 3:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NTN3 Gene

No ASD Table

Relevant External Links for NTN3 Gene

GeneLoc Exon Structure for
NTN3
ECgene alternative splicing isoforms for
NTN3

Expression for NTN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NTN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NTN3 Gene

This gene is overexpressed in Testis (x4.2).

NURSA nuclear receptor signaling pathways regulating expression of NTN3 Gene:

NTN3

SOURCE GeneReport for Unigene cluster for NTN3 Gene:

Hs.158336

mRNA Expression by UniProt/SwissProt for NTN3 Gene:

O00634-NET3_HUMAN
Tissue specificity: Spinal cord.
genes like me logo Genes that share expression patterns with NTN3: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for NTN3 Gene

Orthologs for NTN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for NTN3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NTN3 34 35
  • 98.01 (n)
cow
(Bos Taurus)
Mammalia NTN3 34 35
  • 88.55 (n)
dog
(Canis familiaris)
Mammalia NTN3 34 35
  • 87.48 (n)
rat
(Rattus norvegicus)
Mammalia Ntn3 34
  • 83.75 (n)
mouse
(Mus musculus)
Mammalia Ntn3 34 16 35
  • 83.45 (n)
oppossum
(Monodelphis domestica)
Mammalia NTN3 35
  • 70 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NTN3 35
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves NTN3 35
  • 55 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NTN3 35
  • 50 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii ntn2 35
  • 53 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta NetA 35
  • 36 (a)
ManyToMany
NetB 35
  • 32 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea unc-6 35
  • 42 (a)
OneToMany
Species where no ortholog for NTN3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for NTN3 Gene

ENSEMBL:
Gene Tree for NTN3 (if available)
TreeFam:
Gene Tree for NTN3 (if available)

Paralogs for NTN3 Gene

Paralogs for NTN3 Gene

(1) SIMAP similar genes for NTN3 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with NTN3: view

Variants for NTN3 Gene

Sequence variations from dbSNP and Humsavar for NTN3 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs111268928 -- 2,474,196(+) CGCGT(A/C)GCGCG downstream-variant-500B, upstream-variant-2KB
rs112397998 -- 2,470,738(+) TCTGG(C/T)AGGTG upstream-variant-2KB
rs113261254 -- 2,472,212(+) CTGGC(C/T)CAGGG reference, missense
rs113551249 -- 2,473,001(+) CACCC(A/G/T)GTTGG reference, synonymous-codon
rs114931829 -- 2,471,053(+) GGCTG(C/T)GAAGG upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for NTN3 Gene

Variant ID Type Subtype PubMed ID
dgv4864n54 CNV loss 21841781
dgv4865n54 CNV gain 21841781
dgv4866n54 CNV loss 21841781
esv2422427 CNV duplication 17116639
esv29545 CNV loss 19812545
nsv1052260 CNV gain 25217958
nsv571205 CNV gain 21841781
nsv833121 CNV loss 17160897
nsv952903 CNV deletion 24416366

Variation tolerance for NTN3 Gene

Residual Variation Intolerance Score: 67.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.28; 52.98% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NTN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NTN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NTN3 Gene

Disorders for NTN3 Gene

Relevant External Links for NTN3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NTN3

No disorders were found for NTN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NTN3 Gene

Publications for NTN3 Gene

  1. The NTN2L gene encoding a novel human netrin maps to the autosomal dominant polycystic kidney disease region on chromosome 16p13.3. (PMID: 9143507) Van Raay T.J. … Burn T.C. (Genomics 1997) 2 3 4 22 64
  2. Netrin-3, a mouse homolog of human NTN2L, is highly expressed in sensory ganglia and shows differential binding to netrin receptors. (PMID: 10366627) Wang H. … Tessier-Lavigne M. (J. Neurosci. 1999) 2 3 22 64
  3. Generation of a transcriptional map for a 700-kb region surrounding the polycystic kidney disease type 1 (PKD1) and tuberous sclerosis type 2 (TSC2) disease genes on human chromosome 16p3.3. (PMID: 8828041) Burn T.C. … Landes G.M. (Genome Res. 1996) 3 4 64
  4. A Floor-Plate Extracellular Protein-Protein Interaction Screen Identifies Draxin as a Secreted Netrin-1 Antagonist. (PMID: 26190107) Gao X. … SAPllner C. (Cell Rep 2015) 3 64
  5. Autocrine netrin function inhibits glioma cell motility and promotes focal adhesion formation. (PMID: 21980448) Jarjour A.A. … Kennedy T.E. (PLoS ONE 2011) 3 64

Products for NTN3 Gene

Sources for NTN3 Gene

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