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Aliases for NTN4 Gene

Aliases for NTN4 Gene

  • Netrin 4 2 3 5
  • Beta-Netrin 2 3 4
  • Hepar-Derived Netrin-Like Protein 3 4
  • Netrin-4 2 3
  • PRO3091 3

External Ids for NTN4 Gene

Previous GeneCards Identifiers for NTN4 Gene

  • GC12M095483
  • GC12M096415
  • GC12M095984
  • GC12M094554
  • GC12M093118

Summaries for NTN4 Gene

Entrez Gene Summary for NTN4 Gene

  • This gene encodes a member of the netrin family of proteins, which function in various biological processes including axon guidance, tumorogenesis, and angiogenesis. Netrins are laminin-related proteins that have an N-terminal laminin-type domain, epidermal growth factor-like repeat domain, and a positively charged heparin-binding domain at the C-terminus. The protein encoded by this gene is involved in processes including neurite growth and migration, angiogenesis and mural cell adhesion to endothelial cells. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2016]

GeneCards Summary for NTN4 Gene

NTN4 (Netrin 4) is a Protein Coding gene. Among its related pathways are Developmental Biology and Non-integrin membrane-ECM interactions. Gene Ontology (GO) annotations related to this gene include laminin-1 binding. An important paralog of this gene is LAMB1.

UniProtKB/Swiss-Prot for NTN4 Gene

  • May play an important role in neural, kidney and vascular development. Promotes neurite elongation from olfactory bulb explants.

Additional gene information for NTN4 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NTN4 Gene

Genomics for NTN4 Gene

GeneHancer (GH) Regulatory Elements for NTN4 Gene

Promoters and enhancers for NTN4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12I095788 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 550.8 +1.0 966 3.6 FOXA2 ARID4B SIN3A FEZF1 ZNF2 ZNF48 YY1 GLIS2 FOS REST NTN4 SNRPF LOC105369921 GC12M095785
GH12I095652 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 11.5 +137.4 137420 2.4 CLOCK FOXA2 ZNF133 ETS1 YY1 ZNF302 ZNF207 FOS RXRA YY2 NR2C1 ELK3 METAP2 SNRPF LTA4H NTN4 USP44 RPL29P26 VEZT ENSG00000212448
GH12I095761 Enhancer 1.3 Ensembl ENCODE dbSUPER 11.9 +26.7 26681 5.6 PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF48 ETS1 FOS DEK NTN4 RNU6-247P LOC105369921 SNRPF LOC102723340 GC12M095785 LOC105369919
GH12I095835 Enhancer 1 Ensembl ENCODE 10.8 -46.0 -46034 2.8 FOXA2 ZNF493 ZSCAN4 FEZF1 RARA YY1 ZNF335 ZNF366 ZNF350 RCOR1 LOC105369921 ELK3 NR2C1 RNU6-247P NTN4 LTA4H SNRPF CFAP54 CCDC38 GC12M095850
GH12I095732 Enhancer 1 Ensembl ENCODE 10.7 +57.8 57802 1.9 PKNOX1 ZSCAN4 INSM2 MZF1 FEZF1 ZNF2 ZNF213 ZNF366 ZSCAN5C ZNF391 RNU6-247P NTN4 METAP2 LOC105369919 GC12M095785
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NTN4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NTN4 gene promoter:

Genomic Locations for NTN4 Gene

Genomic Locations for NTN4 Gene
chr12:95,657,807-95,791,152
(GRCh38/hg38)
Size:
133,346 bases
Orientation:
Minus strand
chr12:96,051,583-96,184,930
(GRCh37/hg19)

Genomic View for NTN4 Gene

Genes around NTN4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NTN4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NTN4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NTN4 Gene

Proteins for NTN4 Gene

  • Protein details for NTN4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HB63-NET4_HUMAN
    Recommended name:
    Netrin-4
    Protein Accession:
    Q9HB63
    Secondary Accessions:
    • B2RNC2
    • Q658K9
    • Q7L3F1
    • Q7L9D6
    • Q7Z5B6
    • Q9BZP1
    • Q9NT44
    • Q9P133

    Protein attributes for NTN4 Gene

    Size:
    628 amino acids
    Molecular mass:
    70071 Da
    Quaternary structure:
    • May form a homodimer.

    Alternative splice isoforms for NTN4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NTN4 Gene

Post-translational modifications for NTN4 Gene

  • Glycosylation at Asn56, isoforms=2, 3163, Asn353, and Asn483
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for NTN4 Gene

Domains & Families for NTN4 Gene

Gene Families for NTN4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for NTN4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NTN4: view

No data available for UniProtKB/Swiss-Prot for NTN4 Gene

Function for NTN4 Gene

Molecular function for NTN4 Gene

UniProtKB/Swiss-Prot Function:
May play an important role in neural, kidney and vascular development. Promotes neurite elongation from olfactory bulb explants.

Phenotypes From GWAS Catalog for NTN4 Gene

Gene Ontology (GO) - Molecular Function for NTN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21516116
GO:0043237 laminin-1 binding IEA --
genes like me logo Genes that share ontologies with NTN4: view
genes like me logo Genes that share phenotypes with NTN4: view

Animal Models for NTN4 Gene

MGI Knock Outs for NTN4:

Animal Model Products

  • Taconic Biosciences Mouse Models for NTN4

miRNA for NTN4 Gene

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NTN4 Gene

Localization for NTN4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NTN4 Gene

Secreted, extracellular space, extracellular matrix, basement membrane. Note=Major component.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NTN4 gene
Compartment Confidence
extracellular 5
plasma membrane 4

Gene Ontology (GO) - Cellular Components for NTN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005604 basement membrane IEA --
GO:0005886 plasma membrane TAS --
genes like me logo Genes that share ontologies with NTN4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NTN4 Gene

Pathways & Interactions for NTN4 Gene

genes like me logo Genes that share pathways with NTN4: view

Pathways by source for NTN4 Gene

SIGNOR curated interactions for NTN4 Gene

Activates:

Gene Ontology (GO) - Biological Process for NTN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007411 axon guidance TAS --
GO:0016322 neuron remodeling IEA --
GO:0060668 regulation of branching involved in salivary gland morphogenesis by extracellular matrix-epithelial cell signaling IEA --
genes like me logo Genes that share ontologies with NTN4: view

Drugs & Compounds for NTN4 Gene

No Compound Related Data Available

Transcripts for NTN4 Gene

Unigene Clusters for NTN4 Gene

Netrin 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NTN4 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b
SP1: -
SP2: - -
SP3:

Relevant External Links for NTN4 Gene

GeneLoc Exon Structure for
NTN4
ECgene alternative splicing isoforms for
NTN4

Expression for NTN4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NTN4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NTN4 Gene

This gene is overexpressed in Spleen (x5.1).

Protein differential expression in normal tissues from HIPED for NTN4 Gene

This gene is overexpressed in Lung (26.6), Testis (9.8), Gallbladder (8.9), and Islet of Langerhans (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for NTN4 Gene



NURSA nuclear receptor signaling pathways regulating expression of NTN4 Gene:

NTN4

SOURCE GeneReport for Unigene cluster for NTN4 Gene:

Hs.201034

mRNA Expression by UniProt/SwissProt for NTN4 Gene:

Q9HB63-NET4_HUMAN
Tissue specificity: Expressed in kidney, spleen, mammary gland, aorta, heart, ovary, prostate and fetal spleen.

Evidence on tissue expression from TISSUES for NTN4 Gene

  • Nervous system(4.5)
  • Lung(4.3)
  • Stomach(4.3)
  • Heart(2.2)
  • Spleen(2.2)
genes like me logo Genes that share expression patterns with NTN4: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for NTN4 Gene

Orthologs for NTN4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for NTN4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NTN4 34 33
  • 99.49 (n)
OneToOne
dog
(Canis familiaris)
Mammalia NTN4 34 33
  • 91.4 (n)
OneToOne
cow
(Bos Taurus)
Mammalia NTN4 33 34
  • 90.32 (n)
rat
(Rattus norvegicus)
Mammalia Ntn4 33
  • 85.7 (n)
mouse
(Mus musculus)
Mammalia Ntn4 33 16 34
  • 85.33 (n)
oppossum
(Monodelphis domestica)
Mammalia NTN4 34
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NTN4 34
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves NTN4 33 34
  • 72.39 (n)
lizard
(Anolis carolinensis)
Reptilia NTN4 34
  • 74 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.32478 33
zebrafish
(Danio rerio)
Actinopterygii ntn4 33 34
  • 59.12 (n)
Species where no ortholog for NTN4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for NTN4 Gene

ENSEMBL:
Gene Tree for NTN4 (if available)
TreeFam:
Gene Tree for NTN4 (if available)

Paralogs for NTN4 Gene

Paralogs for NTN4 Gene

(5) SIMAP similar genes for NTN4 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with NTN4: view

Variants for NTN4 Gene

Sequence variations from dbSNP and Humsavar for NTN4 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs193920922 uncertain-significance, Malignant tumor of prostate 95,737,907(-) G/A coding_sequence_variant, missense_variant
rs1000018974 -- 95,736,441(-) A/T intron_variant
rs1000036802 -- 95,737,387(-) C/T intron_variant
rs1000055589 -- 95,780,202(-) A/G intron_variant
rs1000079648 -- 95,691,114(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for NTN4 Gene

Variant ID Type Subtype PubMed ID
esv3549615 CNV deletion 23714750
esv3580380 CNV loss 25503493
esv3630436 CNV loss 21293372
nsv1052350 CNV gain 25217958
nsv455692 CNV gain 19166990
nsv526022 CNV loss 19592680
nsv559831 CNV gain 21841781
nsv7234 OTHER inversion 18451855
nsv833 CNV insertion 18451855
nsv975524 CNV duplication 23825009

Variation tolerance for NTN4 Gene

Residual Variation Intolerance Score: 41.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.39; 63.60% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NTN4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NTN4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NTN4 Gene

Disorders for NTN4 Gene

Additional Disease Information for NTN4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for NTN4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NTN4 Gene

Publications for NTN4 Gene

  1. A novel member of the netrin family, beta-netrin, shares homology with the beta chain of laminin: identification, expression, and functional characterization. (PMID: 11038171) Koch M … Burgeson RE (The Journal of cell biology 2000) 2 3 4 22 58
  2. Netrin-4 regulates angiogenic responses and tumor cell growth. (PMID: 19094984) Nacht M … Jiang Y (Experimental cell research 2009) 3 22 58
  3. Netrin-4 inhibits angiogenesis via binding to neogenin and recruitment of Unc5B. (PMID: 18719102) Lejmi E … Plouët J (Proceedings of the National Academy of Sciences of the United States of America 2008) 3 22 58
  4. Characterization of the receptors for axon guidance factor netrin-4 and identification of the binding domains. (PMID: 17174565) Qin S … Zhang C (Molecular and cellular neurosciences 2007) 3 22 58
  5. Identification of NTN4, TRA1, and STC2 as prognostic markers in breast cancer in a screen for signal sequence encoding proteins. (PMID: 17545519) Esseghir S … Isacke CM (Clinical cancer research : an official journal of the American Association for Cancer Research 2007) 3 22 58

Products for NTN4 Gene

Sources for NTN4 Gene

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