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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 Mirror Movements 1 and Semicircular Canal Dehiscence Syndrome. Among its related pathways are Developmental Biology and Netrin-1 signaling. 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

Additional gene information 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

GeneHancer (GH) Regulatory Elements for NTN1 Gene

Promoters and enhancers for NTN1 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
GH17I009020 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 550.8 -0.1 -63 1.8 KLF17 SIN3A ZNF335 GLIS2 ZNF207 EGR2 SP3 ZBTB11 ZNF398 ZEB2 NTN1 PIR61522 GC17M009008
GH17I008933 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 9.9 -86.5 -86471 2.3 SRF RFX1 ZBED1 JUNB REST BATF ATF2 RELA IKZF1 NFATC1 PIK3R5 SPDYE4 NTN1 NDEL1 GC17M008877
GH17I009148 Enhancer 1.1 Ensembl ENCODE dbSUPER 11.1 +128.8 128803 2.9 SOX13 PKNOX1 FOXA2 GATA3 ZNF316 RERE NR2F6 TCF7L2 SOX5 SCRT1 NTN1 PIR43665 GC17P009124
GH17I009289 Enhancer 1 Ensembl ENCODE 10.7 +269.8 269810 3.1 HDGF PKNOX1 RB1 BMI1 YBX1 BATF IRF4 RAD21 ZNF143 ZNF207 GC17M009268 NTN1 STX8 ENSG00000263708 GC17P009311
GH17I009205 Enhancer 0.8 ENCODE dbSUPER 11.3 +185.3 185268 1.7 ESRRA FOXA2 RXRA MAX RAD21 YY1 FOXA1 JUND HNF4A TCF7L2 NTN1 GC17M009219 LOC101928266
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around NTN1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the NTN1 gene promoter:

Genomic Locations for NTN1 Gene

Genomic Locations for NTN1 Gene
chr17:9,021,542-9,244,000
(GRCh38/hg38)
Size:
222,459 bases
Orientation:
Plus strand
chr17:8,924,859-9,147,317
(GRCh37/hg19)

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 Asn95, Asn116, isoforms=131, Asn417, and isoforms=461
  • 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

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

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.

Phenotypes From GWAS Catalog for NTN1 Gene

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:

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

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NTN1 Gene

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:0007097 nuclear migration IEA --
GO:0007265 Ras protein signal transduction ISS --
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:

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

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 33 34
  • 99.56 (n)
dog
(Canis familiaris)
Mammalia NTN1 33 34
  • 96.58 (n)
cow
(Bos Taurus)
Mammalia NTN1 33 34
  • 95.74 (n)
oppossum
(Monodelphis domestica)
Mammalia NTN1 34
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ntn1 33 16 34
  • 92.55 (n)
rat
(Rattus norvegicus)
Mammalia Ntn1 33
  • 92.27 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia NTN1 34
  • 88 (a)
OneToOne
chicken
(Gallus gallus)
Aves NTN1 33 34
  • 87.42 (n)
lizard
(Anolis carolinensis)
Reptilia NTN1 34
  • 81 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia ntn1-A 33
zebrafish
(Danio rerio)
Actinopterygii ntn1b 34
  • 81 (a)
OneToMany
ntn1a 33 34
  • 77.85 (n)
ntn1 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000228 33
  • 65.58 (n)
fruit fly
(Drosophila melanogaster)
Insecta NetB 35 33 34
  • 61.65 (n)
NetA 35 34
  • 51 (a)
worm
(Caenorhabditis elegans)
Secernentea unc-6 35 33 34
  • 54.55 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7467 34
  • 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 Variation AA Info Type
rs1000003702 -- 9,048,973(+) T/C intron_variant
rs1000016110 -- 9,225,670(+) G/T intron_variant
rs1000038149 -- 9,196,168(+) C/T intron_variant
rs1000038687 -- 9,166,330(+) C/G intron_variant
rs1000043591 -- 9,124,097(+) G/A 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)

Additional Variant Information for NTN1 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for NTN1 Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
mirror movements 1
  • mrmv1
semicircular canal dehiscence syndrome
  • scd syndrome
superior semicircular canal dehiscence
  • canal dehiscence syndrome
colorectal cancer
  • crc
- elite association - COSMIC cancer census association via MalaCards
Search NTN1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NTN1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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 JA … Fearon ER (Cell growth & differentiation : the molecular biology journal of the American Association for Cancer Research 1999) 2 3 4 22 58
  2. Systematic mapping and functional analysis of a family of human epididymal secretory sperm-located proteins. (PMID: 20736409) Li J … Liu Y (Molecular & cellular proteomics : MCP 2010) 3 4 58
  3. Characterization and expression of netrin-1 and its receptors UNC5B and DCC in human placenta. (PMID: 19826074) Dakouane-Giudicelli M … de Mazancourt P (The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society 2010) 3 22 58
  4. Urinary netrin-1 is an early predictive biomarker of acute kidney injury after cardiac surgery. (PMID: 20007677) Ramesh G … Devarajan P (Clinical journal of the American Society of Nephrology : CJASN 2010) 3 22 58
  5. Netrin-1 dampens pulmonary inflammation during acute lung injury. (PMID: 20075388) Mirakaj V … Rosenberger P (American journal of respiratory and critical care medicine 2010) 3 22 58

Products for NTN1 Gene

Sources for NTN1 Gene

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