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    Nid2 nidogen 2 [ Mus musculus (house mouse) ]

    Gene ID: 18074, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nid2provided by MGI
    Official Full Name
    nidogen 2provided by MGI
    Primary source
    MGI:MGI:1298229
    See related
    Ensembl:ENSMUSG00000021806 AllianceGenome:MGI:1298229
    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
    Ly111; NID-2; nidogen-2; entactin-2
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be an extracellular matrix structural constituent. Acts upstream of or within cell-matrix adhesion. Located in basement membrane. Is expressed in several structures, including alimentary system; extraembryonic component; genitourinary system; musculature; and nervous system. Orthologous to human NID2 (nidogen 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in limb E14.5 (RPKM 30.8), subcutaneous fat pad adult (RPKM 23.2) and 24 other tissues See more
    Orthologs
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    Genomic context

    See Nid2 in Genome Data Viewer
    Location:
    14 A3; 14 10.73 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (19801325..19861855)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (19751257..19811787)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene prostaglandin D receptor pseudogene Neighboring gene predicted gene, 29899 Neighboring gene STARR-seq mESC enhancer starr_36077 Neighboring gene STARR-seq mESC enhancer starr_36080 Neighboring gene STARR-positive B cell enhancer ABC_E9891 Neighboring gene RNA transcription, translation and transport factor Neighboring gene DNA segment, Chr 14, ERATO Doi 670, expressed Neighboring gene STARR-seq mESC enhancer starr_36086 Neighboring gene guanine nucleotide binding protein (G protein), gamma 2 Neighboring gene STARR-seq mESC enhancer starr_36089

    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 (3) 
    • Gene trapped (1)  1 citation
    • Targeted (2) 

    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 extracellular matrix structural constituent RCA
    inferred from Reviewed Computational Analysis
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cell-matrix adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within cell-matrix adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within cell-matrix adhesion IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in basement membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in basement membrane IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in basement membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in collagen-containing extracellular matrix HDA PubMed 
    located_in extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    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_008695.2NP_032721.2  nidogen-2 precursor

      See identical proteins and their annotated locations for NP_032721.2

      Status: VALIDATED

      Source sequence(s)
      AK052839, AK164258, AY074820, BY143483
      Consensus CDS
      CCDS36813.1
      UniProtKB/Swiss-Prot
      O88322, Q7TQF0
      UniProtKB/TrEMBL
      Q3TPN0, Q8CFA3
      Related
      ENSMUSP00000022340.4, ENSMUST00000022340.5
      Conserved Domains (6) summary
      smart00135
      Location:12061248
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00539
      Location:108275
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00191
      Location:10471112
      TY; Thyroglobulin type I repeats.; The N-terminal region of human thyroglobulin contains 11 type-1 repeats TY repeats are proposed to be inhibitors of cysteine proteases
      pfam07645
      Location:824865
      EGF_CA; Calcium-binding EGF domain
      pfam12947
      Location:919952
      EGF_3; EGF domain
      cl00186
      Location:548780
      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 ...

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      19801325..19861855
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)