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Aliases for NTN1 Gene

Aliases for NTN1 Gene

  • Netrin 1 2 3 5
  • Epididymis Tissue Protein Li 131P 3 4
  • Netrin-1 2 3
  • NTN1L 3 4
  • Netrin 1, Mouse, Homolog Of 3

External Ids for NTN1 Gene

Previous GeneCards Identifiers for NTN1 Gene

  • GC17P009272
  • GC17P010016
  • GC17P008867
  • GC17P009125
  • GC17P008865
  • GC17P008924

Summaries for NTN1 Gene

Entrez Gene Summary for NTN1 Gene

  • Netrin is included in a family of laminin-related secreted proteins. The function of this gene has not yet been defined; however, netrin is thought to be involved in axon guidance and cell migration during development. Mutations and loss of expression of netrin suggest that variation in netrin may be involved in cancer development. [provided by RefSeq, Jul 2008]

GeneCards Summary for NTN1 Gene

NTN1 (Netrin 1) is a Protein Coding gene. Diseases associated with NTN1 include Semicircular Canal Dehiscence Syndrome and Superior Semicircular Canal Dehiscence Syndrome. Among its related pathways are Notch signaling pathway (KEGG) and Developmental Biology. An important paralog of this gene is NTN3.

UniProtKB/Swiss-Prot for NTN1 Gene

  • Netrins control guidance of CNS commissural axons and peripheral motor axons. Its association with either DCC or some UNC5 receptors will lead to axon attraction or repulsion, respectively. It also serve as a survival factor via its association with its receptors which prevent the initiation of apoptosis. Involved in tumorigenesis by regulating apoptosis.

Gene Wiki entry for NTN1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NTN1 Gene

Genomics for NTN1 Gene

Regulatory Elements for NTN1 Gene

Enhancers for NTN1 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
GH17G008933 1.7 FANTOM5 Ensembl ENCODE dbSUPER 9.9 -86.5 -86471 2.3 ZNF48 RELA ZFHX2 EGR1 POLR2A EED SCRT2 ETV6 CREM SRF PIK3R5 SPDYE4 NTN1 NDEL1 GC17M008877
GH17G009148 1.4 Ensembl ENCODE dbSUPER 11.1 +128.8 128804 2.9 PKNOX1 FOXA2 RAD21 FOS HMG20B SP5 MBD2 GLIS1 CEBPA HNF4A NTN1 PIR43665 GC17P009124
GH17G009289 1.1 Ensembl ENCODE 10.7 +269.8 269811 3.1 HDGF PKNOX1 TBL1XR1 WRNIP1 BMI1 YBX1 RAD21 EGR1 ZNF143 ZNF207 NTN1 STX8 GC17M009268 GC17P009311
GH17G009072 1 Ensembl ENCODE 11.1 +51.7 51737 1.8 ZFHX2 ZNF366 EED SCRT2 FOS IKZF2 CREM SCRT1 ZBED1 JUNB NTN1 GC17P009093 GC17P009034
GH17G009052 0.9 ENCODE 11.6 +32.3 32326 2.6 BMI1 RAD21 ETV6 FOS RELB CREM IKZF2 ZHX2 JUNB GATAD2B NTN1 GC17P009034 GC17P009093
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NTN1 on UCSC Golden Path with GeneCards custom track

Promoters for NTN1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000091094 58 1201 HDGF SIN3A YBX1 GLIS2 GATA2 SP3 JUNB TBX21 GLIS1 SP7

Genomic Location for NTN1 Gene

Chromosome:
17
Start:
9,021,542 bp from pter
End:
9,244,000 bp from pter
Size:
222,459 bases
Orientation:
Plus strand

Genomic View for NTN1 Gene

Genes around NTN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NTN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NTN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NTN1 Gene

Proteins for NTN1 Gene

  • Protein details for NTN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95631-NET1_HUMAN
    Recommended name:
    Netrin-1
    Protein Accession:
    O95631
    Secondary Accessions:
    • E9KL51

    Protein attributes for NTN1 Gene

    Size:
    604 amino acids
    Molecular mass:
    67748 Da
    Quaternary structure:
    • Binds to its receptors; DCC, DSCAM, UNC5A, UNC5B, UNC5C and probably UNC5D.

    Three dimensional structures from OCA and Proteopedia for NTN1 Gene

neXtProt entry for NTN1 Gene

Post-translational modifications for NTN1 Gene

  • Glycosylation at posLast=9595, posLast=116116, Asn131, posLast=417417, and Thr461
  • Modification sites at PhosphoSitePlus

Other Protein References for NTN1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NTN1 Gene

Domains & Families for NTN1 Gene

Gene Families for NTN1 Gene

Suggested Antigen Peptide Sequences for NTN1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NTN1: view

No data available for UniProtKB/Swiss-Prot for NTN1 Gene

Function for NTN1 Gene

Molecular function for NTN1 Gene

GENATLAS Biochemistry:
netrin 1,axon outgrow-promoting protein with homology to chicken ntn and C elegans UNC-6,ubiquitously expressed,interacting with DCC,mediated by cytoplasmic Ca2+ signals,markedly reduced in brain tumors and neuroblastomas
UniProtKB/Swiss-Prot Function:
Netrins control guidance of CNS commissural axons and peripheral motor axons. Its association with either DCC or some UNC5 receptors will lead to axon attraction or repulsion, respectively. It also serve as a survival factor via its association with its receptors which prevent the initiation of apoptosis. Involved in tumorigenesis by regulating apoptosis.

Gene Ontology (GO) - Molecular Function for NTN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 10102268
genes like me logo Genes that share ontologies with NTN1: view
genes like me logo Genes that share phenotypes with NTN1: view

Animal Models for NTN1 Gene

MGI Knock Outs for NTN1:

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for NTN1 Gene

Localization for NTN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NTN1 Gene

Secreted, extracellular space, extracellular matrix.

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 NTN1 gene
Compartment Confidence
extracellular 5
nucleus 3
plasma membrane 2
cytoskeleton 2
cytosol 2
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for NTN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005604 basement membrane IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with NTN1: view

Pathways & Interactions for NTN1 Gene

genes like me logo Genes that share pathways with NTN1: view

Pathways by source for NTN1 Gene

SIGNOR curated interactions for NTN1 Gene

Activates:

Gene Ontology (GO) - Biological Process for NTN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001764 neuron migration IEA --
GO:0006915 apoptotic process IEA --
GO:0006930 substrate-dependent cell migration, cell extension ISS --
GO:0007265 Ras protein signal transduction ISS --
GO:0007409 axonogenesis IEA --
genes like me logo Genes that share ontologies with NTN1: view

Drugs & Compounds for NTN1 Gene

(5) Drugs for NTN1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(4) Additional Compounds for NTN1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with NTN1: view

Transcripts for NTN1 Gene

mRNA/cDNA for NTN1 Gene

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

Unigene Clusters for NTN1 Gene

Netrin 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NTN1 Gene

No ASD Table

Relevant External Links for NTN1 Gene

GeneLoc Exon Structure for
NTN1
ECgene alternative splicing isoforms for
NTN1

Expression for NTN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NTN1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for NTN1 Gene

This gene is overexpressed in Esophagus - Gastroesophageal Junction (x7.4), Esophagus - Muscularis (x7.1), Heart - Atrial Appendage (x6.5), and Artery - Aorta (x4.6).

Protein differential expression in normal tissues from HIPED for NTN1 Gene

This gene is overexpressed in Gallbladder (53.1) and Fetal Brain (13.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NTN1 Gene



Protein tissue co-expression partners for NTN1 Gene

NURSA nuclear receptor signaling pathways regulating expression of NTN1 Gene:

NTN1

SOURCE GeneReport for Unigene cluster for NTN1 Gene:

Hs.660885

mRNA Expression by UniProt/SwissProt for NTN1 Gene:

O95631-NET1_HUMAN
Tissue specificity: Widely expressed in normal adult tissues with highest levels in heart, small intestine, colon, liver and prostate. Reduced expression in brain tumors and neuroblastomas. Expressed in epididymis (at protein level).

Evidence on tissue expression from TISSUES for NTN1 Gene

  • Nervous system(4.6)
  • Liver(4.1)
  • Kidney(2.2)
  • Heart(2.1)
genes like me logo Genes that share expression patterns with NTN1: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for NTN1 Gene

Orthologs for NTN1 Gene

This gene was present in the common ancestor of animals.

Orthologs for NTN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NTN1 35 34
  • 99.56 (n)
OneToOne
dog
(Canis familiaris)
Mammalia NTN1 35 34
  • 96.58 (n)
OneToOne
cow
(Bos Taurus)
Mammalia NTN1 34 35
  • 95.74 (n)
oppossum
(Monodelphis domestica)
Mammalia NTN1 35
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ntn1 34 16 35
  • 92.55 (n)
rat
(Rattus norvegicus)
Mammalia Ntn1 34
  • 92.27 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NTN1 35
  • 88 (a)
OneToOne
chicken
(Gallus gallus)
Aves NTN1 35 34
  • 87.42 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NTN1 35
  • 81 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia ntn1-A 34
zebrafish
(Danio rerio)
Actinopterygii ntn1b 35
  • 81 (a)
OneToMany
ntn1a 34 35
  • 77.85 (n)
ntn1 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000228 34
  • 65.58 (n)
fruit fly
(Drosophila melanogaster)
Insecta NetB 36 34 35
  • 61.65 (n)
NetA 36 35
  • 51 (a)
worm
(Caenorhabditis elegans)
Secernentea unc-6 36 34 35
  • 54.55 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7467 35
  • 37 (a)
ManyToMany
Species where no ortholog for NTN1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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 NTN1 Gene

ENSEMBL:
Gene Tree for NTN1 (if available)
TreeFam:
Gene Tree for NTN1 (if available)

Paralogs for NTN1 Gene

Paralogs for NTN1 Gene

(10) SIMAP similar genes for NTN1 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with NTN1: view

Variants for NTN1 Gene

Sequence variations from dbSNP and Humsavar for NTN1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1000003702 -- 9,048,973(+) TAAAA(C/T)AAGCA intron-variant
rs1000016110 -- 9,225,670(+) CAGGA(G/T)GGATC intron-variant
rs1000038149 -- 9,196,168(+) AGCCT(C/T)GTGTT intron-variant
rs1000038687 -- 9,166,330(+) GCCCC(C/G)AGGCT intron-variant
rs1000043591 -- 9,124,097(+) GGAAA(A/G)GCTGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NTN1 Gene

Variant ID Type Subtype PubMed ID
dgv1415n106 CNV deletion 24896259
dgv1685e59 CNV duplication 20981092
dgv3096n100 CNV gain 25217958
dgv3097n100 CNV gain 25217958
esv1003228 CNV deletion 20482838
esv25265 CNV loss 19812545
esv2670723 CNV deletion 23128226
esv2675061 CNV deletion 23128226
esv2715625 CNV deletion 23290073
esv2715626 CNV deletion 23290073
esv2715627 CNV deletion 23290073
esv2715628 CNV deletion 23290073
esv2715630 CNV deletion 23290073
esv3427416 CNV duplication 20981092
esv3554112 CNV deletion 23714750
esv3582514 CNV loss 25503493
esv3639895 CNV loss 21293372
nsv1062555 CNV loss 25217958
nsv1064011 CNV gain 25217958
nsv1071336 CNV deletion 25765185
nsv1117178 CNV tandem duplication 24896259
nsv111830 CNV deletion 16902084
nsv1134597 CNV deletion 24896259
nsv1138499 CNV deletion 24896259
nsv1151747 CNV deletion 26484159
nsv1971 CNV insertion 18451855
nsv472393 CNV novel sequence insertion 20440878
nsv516433 CNV loss 19592680
nsv519212 CNV gain 19592680
nsv519249 CNV loss 19592680
nsv521247 CNV loss 19592680
nsv574341 CNV gain 21841781
nsv7289 OTHER inversion 18451855
nsv827882 CNV gain 20364138
nsv833354 CNV loss 17160897
nsv833355 CNV loss 17160897

Variation tolerance for NTN1 Gene

Residual Variation Intolerance Score: 37.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.82; 17.14% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NTN1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NTN1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NTN1 Gene

Disorders for NTN1 Gene

MalaCards: The human disease database

(3) MalaCards diseases for NTN1 Gene - From: DISEASES, Novoseek, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search NTN1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for NTN1

Genetic Association Database (GAD)
NTN1
Human Genome Epidemiology (HuGE) Navigator
NTN1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NTN1
genes like me logo Genes that share disorders with NTN1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NTN1 Gene

Publications for NTN1 Gene

  1. Netrin-1: interaction with deleted in colorectal cancer (DCC) and alterations in brain tumors and neuroblastomas. (PMID: 9950216) Meyerhardt J.A. … Fearon E.R. (Cell Growth Differ. 1999) 2 3 4 22 64
  2. Characterization and expression of netrin-1 and its receptors UNC5B and DCC in human placenta. (PMID: 19826074) Dakouane-Giudicelli M. … de Mazancourt P. (J. Histochem. Cytochem. 2010) 3 22 64
  3. Systematic mapping and functional analysis of a family of human epididymal secretory sperm-located proteins. (PMID: 20736409) Li J. … Liu Y. (Mol. Cell. Proteomics 2010) 3 4 64
  4. Urinary netrin-1 is an early predictive biomarker of acute kidney injury after cardiac surgery. (PMID: 20007677) Ramesh G. … Devarajan P. (Clin J Am Soc Nephrol 2010) 3 22 64
  5. Netrin-1 dampens pulmonary inflammation during acute lung injury. (PMID: 20075388) Mirakaj V. … Rosenberger P. (Am. J. Respir. Crit. Care Med. 2010) 3 22 64

Products for NTN1 Gene

Sources for NTN1 Gene

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