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    Nid2 nidogen 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 302248, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nid2provided by RGD
    Official Full Name
    nidogen 2provided by RGD
    Primary source
    RGD:1311685
    See related
    EnsemblRapid:ENSRNOG00000000341 AllianceGenome:RGD:1311685
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    NID-2
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in cell-matrix adhesion. Located in cell surface. Orthologous to human NID2 (nidogen 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 226.2), Muscle (RPKM 81.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nid2 in Genome Data Viewer
    Location:
    15p16
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (4507224..4562949, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (4458082..4513808, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (4893999..4951893, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102554918 Neighboring gene RNA transcription, translation and transport factor Neighboring gene uncharacterized LOC102555049 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 12, pseudogene 5

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Expression of nidogens in rat uterus and embryo during decidualization and implantation. Oner H, et al. J Morphol, 2006 Jul. PMID 16607619
    2. Hematopoietic cells are a source of nidogen-1 and nidogen-2 during mouse liver development. Tomte LT, et al. J Histochem Cytochem, 2006 May. PMID 16618944
    3. Identification of the basement membrane protein nidogen as a candidate ligand for tumor endothelial marker 7 in vitro and in vivo. Lee HK, et al. FEBS Lett, 2006 Apr 17. PMID 16574105
    4. Binding of mouse nidogen-2 to basement membrane components and cells and its expression in embryonic and adult tissues suggest complementary functions of the two nidogens. Salmivirta K, et al. Exp Cell Res, 2002 Oct 1. PMID 12243745
    5. Cleavage of nidogen-1 by cathepsin S impairs its binding to basement membrane partners. Sage J, et al. PLoS One, 2012. PMID 22952693, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    		  
    involved_in cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cell-matrix adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in basement membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in basement membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in basement membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    nidogen-2
    Names
    nidogen 2 (osteonidogen)

    NCBI Reference Sequences (RefSeq)

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    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_001012005.2 → NP_001012005.2  nidogen-2 precursor

      See identical proteins and their annotated locations for NP_001012005.2

      Status: PROVISIONAL

      Source sequence(s)
      BC169012
      UniProtKB/Swiss-Prot
      B5DFC9, Q5M812
      UniProtKB/TrEMBL
      A0A0G2K3C8
      Related
      ENSRNOP00000072586.3, ENSRNOT00000082196.3
      Conserved Domains (7) summary
      smart00135
      Location:1199 → 1241
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00179
      Location:908 → 945
      EGF_CA; Calcium-binding EGF-like domain
      smart00539
      Location:108 → 274
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00191
      Location:1040 → 1105
      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
      cd00255
      Location:543 → 767
      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 ...
      pfam07645
      Location:817 → 858
      EGF_CA; Calcium-binding EGF domain
      pfam12947
      Location:779 → 815
      EGF_3; EGF domain

    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_086033.1 Reference GRCr8

      Range
      4507224..4562949 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B5DFC9.1 GenPept UniProtKB/Swiss-Prot:B5DFC9

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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