U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    NTN1 netrin 1 [ Homo sapiens (human) ]

    Gene ID: 9423, updated on 27-Nov-2024

    Summary

    Official Symbol
    NTN1provided by HGNC
    Official Full Name
    netrin 1provided by HGNC
    Primary source
    HGNC:HGNC:8029
    See related
    Ensembl:ENSG00000065320 MIM:601614; AllianceGenome:HGNC:8029
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NET1; MRMV4; NTN1L
    Summary
    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]
    Expression
    Broad expression in heart (RPKM 20.8), esophagus (RPKM 16.8) and 17 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See NTN1 in Genome Data Viewer
    Location:
    17p13.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (9003087..9244000)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (8910268..9150998)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (8924827..9147317)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903921 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8189 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8190 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11717 Neighboring gene phosphoinositide-3-kinase regulatory subunit 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11718 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8857999-8858500 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8858501-8859000 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8191 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8192 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11719 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11720 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11721 Neighboring gene PIK3R5 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8193 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8194 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:8907139-8907768 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11722 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8195 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8924225-8924768 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8936035-8936534 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr17:8954033-8954690 and GRCh37_chr17:8954691-8955350 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:8955351-8956008 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:8956741-8957362 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:8957363-8957982 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:8957983-8958603 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8990973-8991474 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8991475-8991974 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9041579-9042287 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9054043-9054886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9058975-9059476 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9059477-9059976 Neighboring gene uncharacterized LOC101928266 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9083413-9083914 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9086141-9086640 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9099203-9100124 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr17:9124521-9125720 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9128413-9128964 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9129517-9130068 Neighboring gene uncharacterized LOC124903923 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9130069-9130619 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9131120-9131620 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9133199-9133700 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8197 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9161269-9161860 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:9176317-9176818 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11723 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11724 Neighboring gene NANOG hESC enhancer GRCh37_chr17:9225613-9226114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9232495-9233000 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:9233001-9233506 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:9233507-9234012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:9234013-9234518 Neighboring gene syntaxin 8 Neighboring gene Sharpr-MPRA regulatory region 2542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11725 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:9377307-9377808 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9409688-9410556 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:9410557-9411424 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11726 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11727 Neighboring gene ribosomal protein L19 pseudogene 18 Neighboring gene cilia and flagella associated protein 52

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Mirror movements 4
    MedGen: C4748869 OMIM: 618264 GeneReviews: Congenital Mirror Movements
    not available

    EBI GWAS Catalog

    Description
    Genome-wide meta-analyses of nonsyndromic cleft lip with or without cleft palate identify six new risk loci.
    EBI GWAS Catalog
    Identification of inherited genetic variations influencing prognosis in early-onset breast cancer.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of netrin 1 (NTN1) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Cdc42 protein signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in Ras protein signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in anterior/posterior axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chemorepulsion of axon ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in glial cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inner ear morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mammary gland duct morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in motor neuron migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of axon extension IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nuclear migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of axon extension ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cell motility ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of glial cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of glial cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of synapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in substrate-dependent cell migration, cell extension ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in actin cytoskeleton IDA
    Inferred from Direct Assay
    more info
     
    located_in basement membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in extracellular region IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    netrin-1
    Names
    epididymis tissue protein Li 131P
    netrin 1, mouse, homolog of

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_004822.3NP_004813.2  netrin-1 precursor

      See identical proteins and their annotated locations for NP_004813.2

      Status: REVIEWED

      Source sequence(s)
      AC005695, AC090610, U75586
      Consensus CDS
      CCDS11148.1
      UniProtKB/Swiss-Prot
      E9KL51, O95631
      Related
      ENSP00000173229.2, ENST00000173229.7
      Conserved Domains (4) summary
      smart00136
      Location:46283
      LamNT; Laminin N-terminal domain (domain VI)
      cd00055
      Location:284329
      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:487601
      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:404441
      Laminin_EGF; Laminin EGF domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      9003087..9244000
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047437096.1XP_047293052.1  netrin-1 isoform X1

      UniProtKB/Swiss-Prot
      E9KL51, O95631
    2. XM_006721595.4XP_006721658.1  netrin-1 isoform X1

      See identical proteins and their annotated locations for XP_006721658.1

      UniProtKB/Swiss-Prot
      E9KL51, O95631
      Conserved Domains (4) summary
      smart00136
      Location:46283
      LamNT; Laminin N-terminal domain (domain VI)
      cd00055
      Location:284329
      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:487601
      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:404441
      Laminin_EGF; Laminin EGF domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      8910268..9150998
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054317835.1XP_054173810.1  netrin-1 isoform X1

      UniProtKB/Swiss-Prot
      E9KL51, O95631
    2. XM_054317834.1XP_054173809.1  netrin-1 isoform X1

      UniProtKB/Swiss-Prot
      E9KL51, O95631