U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Col24a1 collagen, type XXIV, alpha 1 [ Mus musculus (house mouse) ]

    Gene ID: 71355, updated on 9-Dec-2024

    Summary

    Official Symbol
    Col24a1provided by MGI
    Official Full Name
    collagen, type XXIV, alpha 1provided by MGI
    Primary source
    MGI:MGI:1918605
    See related
    Ensembl:ENSMUSG00000028197 AllianceGenome:MGI:1918605
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    5430404K19Rik
    Summary
    This gene encodes the alpha-1 subunit of type XXIV collagen, one of the low abundance fibril-forming collagens found in cartilage. The encoded protein has structural features of invertebrate fibrillar collagens and is expressed predominantly in bone tissue. Alternate splicing of this gene results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Dec 2015]
    Expression
    Biased expression in limb E14.5 (RPKM 3.8), frontal lobe adult (RPKM 3.5) and 7 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Col24a1 in Genome Data Viewer
    Location:
    3 H2; 3 69.42 cM
    Exon count:
    62
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (144998233..145257768)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (145292472..145552013)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E1637 Neighboring gene STARR-positive B cell enhancer mm9_chr3:144794197-144794498 Neighboring gene predicted gene, 40163 Neighboring gene outer dense fiber of sperm tails 2-like Neighboring gene STARR-seq mESC enhancer starr_09192 Neighboring gene predicted gene, 35133 Neighboring gene STARR-seq mESC enhancer starr_09193 Neighboring gene STARR-seq mESC enhancer starr_09194 Neighboring gene STARR-seq mESC enhancer starr_09195 Neighboring gene STARR-seq mESC enhancer starr_09196 Neighboring gene STARR-seq mESC enhancer starr_09197 Neighboring gene zinc finger, HIT type 6 Neighboring gene STARR-seq mESC enhancer starr_09198 Neighboring gene predicted gene, 40164

    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 (2) 
    • Targeted (2) 

    Pathways from PubChem

    General gene information

    Clone Names

    • MGC107332

    Gene Ontology Provided by MGI

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

    General protein information

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

    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_001317733.1NP_001304662.1  collagen alpha-1(XXIV) chain isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AC123711, AC136729, AC161237
      Conserved Domains (2) summary
      pfam01391
      Location:411468
      Collagen; Collagen triple helix repeat (20 copies)
      cl02436
      Location:702884
      COLFI; Fibrillar collagen C-terminal domain
    2. NM_027770.3NP_082046.2  collagen alpha-1(XXIV) chain isoform 1 precursor

      See identical proteins and their annotated locations for NP_082046.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC123711, AC136729, AC161237
      Consensus CDS
      CCDS17892.1
      UniProtKB/Swiss-Prot
      B2RT51, E9QNS5, Q30D77
      Related
      ENSMUSP00000029848.5, ENSMUST00000029848.5
      Conserved Domains (4) summary
      pfam01391
      Location:577634
      Collagen; Collagen triple helix repeat (20 copies)
      pfam03157
      Location:9311424
      Glutenin_hmw; High molecular weight glutenin subunit
      cl02436
      Location:15501732
      COLFI; Fibrillar collagen C-terminal domain
      cl22861
      Location:41230
      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 ...

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      144998233..145257768
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011240232.3XP_011238534.1  collagen alpha-1(XXIV) chain isoform X1

      See identical proteins and their annotated locations for XP_011238534.1

      UniProtKB/Swiss-Prot
      B2RT51, E9QNS5, Q30D77
      Conserved Domains (4) summary
      pfam01391
      Location:577634
      Collagen; Collagen triple helix repeat (20 copies)
      pfam03157
      Location:9311424
      Glutenin_hmw; High molecular weight glutenin subunit
      cl02436
      Location:15501732
      COLFI; Fibrillar collagen C-terminal domain
      cl22861
      Location:41230
      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_006502097.4XP_006502160.1  collagen alpha-1(XXIV) chain isoform X1

      See identical proteins and their annotated locations for XP_006502160.1

      UniProtKB/Swiss-Prot
      B2RT51, E9QNS5, Q30D77
      Conserved Domains (4) summary
      pfam01391
      Location:577634
      Collagen; Collagen triple helix repeat (20 copies)
      pfam03157
      Location:9311424
      Glutenin_hmw; High molecular weight glutenin subunit
      cl02436
      Location:15501732
      COLFI; Fibrillar collagen C-terminal domain
      cl22861
      Location:41230
      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 ...
    3. XM_017319724.3XP_017175213.1  collagen alpha-1(XXIV) chain isoform X2

      Conserved Domains (2) summary
      pfam01391
      Location:10061065
      Collagen; Collagen triple helix repeat (20 copies)
      cl22861
      Location:41230
      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 ...
    4. XM_036163325.1XP_036019218.1  collagen alpha-1(XXIV) chain isoform X3

      Conserved Domains (2) summary
      pfam01391
      Location:10601115
      Collagen; Collagen triple helix repeat (20 copies)
      cl22861
      Location:41230
      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 ...

    RNA

    1. XR_001783751.3 RNA Sequence

    2. XR_001783752.3 RNA Sequence

    External link. Please review our privacy policy.