U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Nid1 nidogen 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25494, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nid1provided by RGD
    Official Full Name
    nidogen 1provided by RGD
    Primary source
    RGD:3178
    See related
    EnsemblRapid:ENSRNOG00000002461 AllianceGenome:RGD:3178
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nid
    Summary
    Predicted to enable collagen binding activity; laminin-1 binding activity; and proteoglycan binding activity. Predicted to act upstream of or within cell-matrix adhesion; glomerular basement membrane development; and positive regulation of cell-substrate adhesion. Predicted to be located in basement membrane. Orthologous to human NID1 (nidogen 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Heart (RPKM 456.4), Kidney (RPKM 434.0) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Nid1 in Genome Data Viewer
    Location:
    17q12.3
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (93069013..93142416)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (86085133..86158272)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (90553161..90627133, complement)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene endoplasmic reticulum oxidoreductase 1 beta Neighboring gene G protein-coupled receptor 137B Neighboring gene uncharacterized LOC134482624 Neighboring gene lysosomal trafficking regulator

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding  
    enables collagen binding  
    enables collagen binding  
    enables extracellular matrix binding  
    enables laminin binding  
    enables laminin-1 binding  
    enables laminin-1 binding  
    enables protein binding PubMed 
    enables proteoglycan binding  
    enables proteoglycan binding  
    Component Evidence Code Pubs
    located_in basement membrane  
    located_in basement membrane  
    located_in cell periphery  
    located_in extracellular matrix  
    located_in extracellular region  

    General protein information

    Preferred Names
    nidogen-1
    Names
    NID-1
    entactin
    nidogen (entactin)

    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_001398520.2NP_001385449.1  nidogen-1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/TrEMBL
      F1LM84
      Related
      ENSRNOP00000003349.6, ENSRNOT00000003349.9
      Conserved Domains (8) summary
      smart00135
      Location:10131054
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00179
      Location:709750
      EGF_CA; Calcium-binding EGF-like domain
      smart00539
      Location:106269
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00255
      Location:428659
      nidG2; Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a ...
      pfam00058
      Location:9911028
      Ldl_recept_b; Low-density lipoprotein receptor repeat class B
      pfam00086
      Location:848918
      Thyroglobulin_1; Thyroglobulin type-1 repeat
      pfam12947
      Location:810838
      EGF_3; EGF domain
      pfam14670
      Location:12111235
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      93069013..93142416
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276080.1XP_063132150.1  nidogen-1 isoform X1

      UniProtKB/TrEMBL
      F1LM84
    External link. Please review our privacy policy.