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    Col23a1 collagen, type XXIII, alpha 1 [ Mus musculus (house mouse) ]

    Gene ID: 237759, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Col23a1provided by MGI
    Official Full Name
    collagen, type XXIII, alpha 1provided by MGI
    Primary source
    MGI:MGI:2653243
    See related
    Ensembl:ENSMUSG00000063564 AllianceGenome:MGI:2653243
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2810458L13Rik
    Summary
    Predicted to be an extracellular matrix structural constituent. Predicted to be involved in extracellular matrix organization. Located in collagen-containing extracellular matrix. Is expressed in several structures, including branchial arch; forelimb bud; genitourinary system; somite; and vibrissa. Orthologous to human COL23A1 (collagen type XXIII alpha 1 chain). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in limb E14.5 (RPKM 8.2), lung adult (RPKM 8.0) and 21 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Col23a1 in Genome Data Viewer
    Location:
    11 B1.3; 11 31.03 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (51180508..51474752)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (51289679..51583925)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene Myb/SANT DNA binding domain containing 5 Neighboring gene STARR-positive B cell enhancer ABC_E5223 Neighboring gene Myb/SANT DNA binding domain containing 5 like Neighboring gene CDC like kinase 4 Neighboring gene STARR-positive B cell enhancer mm9_chr11:51347850-51348150 Neighboring gene STARR-positive B cell enhancer ABC_E6980 Neighboring gene STARR-seq mESC enhancer starr_29416 Neighboring gene STARR-positive B cell enhancer ABC_E3947 Neighboring gene 5-phosphohydroxy-L-lysine phospholyase Neighboring gene STARR-positive B cell enhancer ABC_E255 Neighboring gene heterogeneous nuclear ribonucleoprotein A/B Neighboring gene required for meiotic nuclear division 5 homolog B Neighboring gene NHP2 ribonucleoprotein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Shedding of collagen XXIII is mediated by furin and depends on the plasma membrane microenvironment. Veit G, et al. J Biol Chem, 2007 Sep 14. PMID 17627939
    2. Expression of type XXIII collagen mRNA and protein. Koch M, et al. J Biol Chem, 2006 Jul 28. PMID 16728390
    3. Transcriptional targets of TWIST1 in the cranial mesoderm regulate cell-matrix interactions and mesenchyme maintenance. Bildsoe H, et al. Dev Biol, 2016 Oct 1. PMID 27546376
    4. TSHZ3 deletion causes an autism syndrome and defects in cortical projection neurons. Caubit X, et al. Nat Genet, 2016 Nov. PMID 27668656, Free PMC Article
    5. Single-cell transcriptomic analysis identifies murine heart molecular features at embryonic and neonatal stages. Feng W, et al. Nat Commun, 2022 Dec 27. PMID 36575170, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. analysis of collagen XXIII mRNA and protein
      Title: Expression of type XXIII collagen mRNA and protein.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent conferring tensile strength IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables extracellular matrix structural constituent conferring tensile strength RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    enables heparin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in basement membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in collagen-containing extracellular matrix HDA PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    collagen alpha-1(XXIII) chain
    Names
    procollagen, type XXIII, 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_153393.2 → NP_700442.2  collagen alpha-1(XXIII) chain

      See identical proteins and their annotated locations for NP_700442.2

      Status: PROVISIONAL

      Source sequence(s)
      AL645907, AL662843
      Consensus CDS
      CCDS24652.1
      UniProtKB/Swiss-Prot
      Q5SUQ0, Q8K4G2
      Related
      ENSMUSP00000099826.3, ENSMUST00000102765.9
      Conserved Domains (1) summary
      pfam01391
      Location:455 → 512
      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_000077.7 Reference GRCm39 C57BL/6J

      Range
      51180508..51474752
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011248983.4 → XP_011247285.1  collagen alpha-1(XXIII) chain isoform X2

      Conserved Domains (1) summary
      pfam01391
      Location:124 → 168
      Collagen; Collagen triple helix repeat (20 copies)

    2. XM_036156655.1 → XP_036012548.1  collagen alpha-1(XXIII) chain isoform X1

      Conserved Domains (1) summary
      pfam01391
      Location:449 → 503
      Collagen; Collagen triple helix repeat (20 copies)

    RNA

    1. XR_004936947.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K4G2.2 GenPept UniProtKB/Swiss-Prot:Q8K4G2

    Gene LinkOut

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

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