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    Col9a2 collagen, type IX, alpha 2 [ Mus musculus (house mouse) ]

    Gene ID: 12840, updated on 9-Dec-2024

    Summary

    Official Symbol
    Col9a2provided by MGI
    Official Full Name
    collagen, type IX, alpha 2provided by MGI
    Primary source
    MGI:MGI:88466
    See related
    Ensembl:ENSMUSG00000028626 AllianceGenome:MGI:88466
    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
    Col9a-2
    Summary
    Predicted to enable protein homodimerization activity. Predicted to be an extracellular matrix structural constituent conferring tensile strength. Predicted to be involved in extracellular matrix organization. Located in collagen-containing extracellular matrix. Is expressed in several structures, including cap mesenchyme; central nervous system; limb mesenchyme; sensory organ; and skeleton. Human ortholog(s) of this gene implicated in Stickler syndrome; multiple epiphyseal dysplasia 2; and osteochondrodysplasia. Orthologous to human COL9A2 (collagen type IX alpha 2 chain). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in limb E14.5 (RPKM 84.1), CNS E14 (RPKM 17.5) and 4 other tissues See more
    Orthologs
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    Genomic context

    See Col9a2 in Genome Data Viewer
    Location:
    4 D2.2; 4 56.78 cM
    Exon count:
    32
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (120896763..120912522)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (121039566..121055325)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene zinc finger protein 69 Neighboring gene STARR-positive B cell enhancer ABC_E6208 Neighboring gene STARR-positive B cell enhancer ABC_E4659 Neighboring gene small ArfGAP 2 Neighboring gene microRNA 7015 Neighboring gene STARR-positive B cell enhancer ABC_E6209 Neighboring gene STARR-positive B cell enhancer ABC_E3508 Neighboring gene STARR-positive B cell enhancer ABC_E10255 Neighboring gene STARR-positive B cell enhancer ABC_E6210 Neighboring gene STARR-seq mESC enhancer starr_11259 Neighboring gene zinc metallopeptidase, STE24 Neighboring gene predicted gene, 23540 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:120770755-120770962 Neighboring gene transmembrane and coiled-coil domains 2

    Genomic regions, transcripts, and products

    Variation

    Alleles

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

    General gene information

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    part_of collagen trimer  
    part_of collagen type IX trimer  
    located_in collagen-containing extracellular matrix PubMed 
    is_active_in collagen-containing extracellular matrix  
    located_in extracellular region  
    is_active_in extracellular space  

    General protein information

    Preferred Names
    collagen alpha-2(IX) chain
    Names
    procollagen, type IX, alpha 2

    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_007741.2NP_031767.2  collagen alpha-2(IX) chain precursor

      Status: VALIDATED

      Source sequence(s)
      AA171281, BB732275, BQ964231, BU512853, BY088510, BY232299, BY732235, CJ046324, CJ312879, CX243824
      Consensus CDS
      CCDS18599.1
      UniProtKB/TrEMBL
      I7HJR1, Q8K2W0
      Related
      ENSMUSP00000030372.6, ENSMUST00000030372.6
      Conserved Domains (1) summary
      pfam01391
      Location:258315
      Collagen; Collagen triple helix repeat (20 copies)

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      120896763..120912522
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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