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    Col10a1 collagen type X alpha 1 chain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25681, updated on 9-Dec-2024

    Summary

    Official Symbol
    Col10a1provided by RGD
    Official Full Name
    collagen type X alpha 1 chainprovided by RGD
    Primary source
    RGD:2371
    See related
    EnsemblRapid:ENSRNOG00000051399 AllianceGenome:RGD:2371
    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
    Summary
    Involved in cartilage development and endochondral ossification. Located in collagen-containing extracellular matrix. Biomarker of degenerative disc disease. Human ortholog(s) of this gene implicated in Schmid metaphyseal chondrodysplasia and osteochondrodysplasia. Orthologous to human COL10A1 (collagen type X alpha 1 chain). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 62.6), Spleen (RPKM 53.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Col10a1 in Genome Data Viewer
    Location:
    20q12
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (39737536..39744518)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (38183103..38189488)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (41180295..41190664)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene TSPY-like 1 Neighboring gene TSPY-like 4 Neighboring gene 5'-nucleotidase domain containing 1 Neighboring gene uncharacterized LOC120098933 Neighboring gene uncharacterized LOC120098931 Neighboring gene fyn-related Src family tyrosine kinase

    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

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in cell cortex  
    part_of collagen trimer  
    part_of collagen type X trimer  
    is_active_in collagen-containing extracellular matrix  
    located_in collagen-containing extracellular matrix PubMed 
    located_in collagen-containing extracellular matrix  
    located_in extracellular matrix  
    is_active_in extracellular space  

    General protein information

    Preferred Names
    collagen alpha-1(X) chain
    Names
    collagen, type X, alpha 1
    procollagen, type X, alpha 1

    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_013140.1 → NP_037272.1  collagen alpha-1(X) chain precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      A0A0G2K7A5
      Related
      ENSRNOP00000074127.1, ENSRNOT00000081117.3

    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_086038.1 Reference GRCr8

      Range
      39737536..39744518
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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