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    Nid1 nidogen 1 [ Mus musculus (house mouse) ]

    Gene ID: 18073, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nid1provided by MGI
    Official Full Name
    nidogen 1provided by MGI
    Primary source
    MGI:MGI:97342
    See related
    Ensembl:ENSMUSG00000005397 AllianceGenome:MGI:97342
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Nid; entactin; nidogen-1; A630025O17; entactin-1
    Summary
    Enables collagen binding activity and laminin-1 binding activity. Acts upstream of or within cell-matrix adhesion; glomerular basement membrane development; and positive regulation of cell-substrate adhesion. Located in basement membrane. Is expressed in several structures, including alimentary system; blastocyst; eye; genitourinary system; and nervous system. Orthologous to human NID1 (nidogen 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in subcutaneous fat pad adult (RPKM 162.2), mammary gland adult (RPKM 90.0) and 19 other tissues See more
    Orthologs
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    Genomic context

    See Nid1 in Genome Data Viewer
    Location:
    13 A1; 13 5.26 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (13612252..13686849)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (13437602..13512275)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 137B Neighboring gene STARR-positive B cell enhancer ABC_E7205 Neighboring gene embryonic H3 histone Neighboring gene STARR-positive B cell enhancer ABC_E11531 Neighboring gene STARR-seq mESC enhancer starr_33691 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:13656913-13657141 Neighboring gene STARR-positive B cell enhancer ABC_E1868 Neighboring gene predicted gene, 30836 Neighboring gene lysosomal trafficking regulator Neighboring gene STARR-seq mESC enhancer starr_33693 Neighboring gene STARR-seq mESC enhancer starr_33694 Neighboring gene guanine nucleotide binding protein (G protein), gamma 4

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables collagen binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables collagen binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables extracellular matrix binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables extracellular matrix structural constituent RCA
    inferred from Reviewed Computational Analysis
    more info
    PubMed 
    enables laminin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables laminin-1 binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables proteoglycan binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables proteoglycan binding ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    nidogen-1
    Names
    NID-1
    Nidogen precursor (Entactin)
    entactin 1

    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_010917.3NP_035047.2  nidogen-1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC122465, CT010431
      Consensus CDS
      CCDS26244.1
      UniProtKB/Swiss-Prot
      P10493, Q3TKX9, Q8BQI3, Q8C3U8, Q8C9P6
      Related
      ENSMUSP00000005532.8, ENSMUST00000005532.9
      Conserved Domains (8) summary
      smart00135
      Location:10121053
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00179
      Location:708749
      EGF_CA; Calcium-binding EGF-like domain
      smart00539
      Location:106269
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00255
      Location:427658
      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:9901027
      Ldl_recept_b; Low-density lipoprotein receptor repeat class B
      pfam00086
      Location:847917
      Thyroglobulin_1; Thyroglobulin type-1 repeat
      pfam12947
      Location:809837
      EGF_3; EGF domain
      pfam14670
      Location:12101234
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000079.7 Reference GRCm39 C57BL/6J

      Range
      13612252..13686849
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)