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    Col24a1 collagen type XXIV alpha 1 chain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 499723, updated on 27-Dec-2024

    Summary

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    Symbol
    Col24a1provided by RGD
    Full Name
    collagen type XXIV alpha 1 chainprovided by RGD
    Primary source
    RGD:1565539
    See related
    EnsemblRapid:ENSRNOG00000014143 AllianceGenome:RGD:1565539
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1565539
    Summary
    Predicted to be an extracellular matrix structural constituent conferring tensile strength. Predicted to be involved in extracellular matrix organization. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Predicted to be part of collagen trimer. Predicted to be active in basement membrane and extracellular space. Orthologous to human COL24A1 (collagen type XXIV alpha 1 chain). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 68.3), Muscle (RPKM 19.4) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Col24a1 in Genome Data Viewer
    Location:
    2q44
    Exon count:
    61
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (236872583..237129768)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (234212256..234469445)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (251200686..251436254)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134485995 Neighboring gene outer dense fiber of sperm tails 2-like Neighboring gene uncharacterized LOC134485997 Neighboring gene uncharacterized LOC134485996 Neighboring gene U6 spliceosomal RNA Neighboring gene zinc finger, HIT-type containing 6 Neighboring gene cellular communication network factor 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Haploinsufficiency of SAMD9L, an endosome fusion facilitator, causes myeloid malignancies in mice mimicking human diseases with monosomy 7. Nagamachi A, et al. Cancer Cell, 2013 Sep 9. PMID 24029230
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent conferring tensile strength IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation 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
    		  
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    collagen alpha-1(XXIV) chain; collagen type XXIV alpha 1 chain
    Names
    collagen, type XXIV, alpha 1

    NCBI Reference Sequences (RefSeq)

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    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_086020.1 Reference GRCr8

      Range
      236872583..237129768
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039103871.2 → XP_038959799.1  collagen alpha-1(XXIV) chain isoform X1

      UniProtKB/TrEMBL
      F1M748
      Related
      ENSRNOP00000106432.1, ENSRNOT00000145229.1
      Conserved Domains (4) summary
      PHA03169
      Location:958 → 1112
      PHA03169; hypothetical protein; Provisional
      pfam01391
      Location:1245 → 1301
      Collagen; Collagen triple helix repeat (20 copies)
      cl02436
      Location:1548 → 1730
      COLFI; Fibrillar collagen C-terminal domain
      cl22861
      Location:41 → 227
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    2. XM_063282923.1 → XP_063138993.1  collagen alpha-1(XXIV) chain isoform X1

      UniProtKB/TrEMBL
      F1M748
      Related
      ENSRNOP00000102736.1, ENSRNOT00000136098.1

    3. XM_039103872.2 → XP_038959800.1  collagen alpha-1(XXIV) chain isoform X2

      Conserved Domains (3) summary
      PHA03169
      Location:254 → 408
      PHA03169; hypothetical protein; Provisional
      pfam01391
      Location:541 → 597
      Collagen; Collagen triple helix repeat (20 copies)
      cl02436
      Location:844 → 1026
      COLFI; Fibrillar collagen C-terminal domain

    RNA

    1. XR_010064497.1 RNA Sequence

    2. XR_010064498.1 RNA Sequence

    3. XR_005501386.2 RNA Sequence

    4. XR_005501387.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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