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

Gene ID: 237759, updated on 14-Nov-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 enable heparin binding activity and identical protein binding 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 bone; genitourinary system; gut; skin; and somite. Orthologous to human COL23A1 (collagen type XXIII alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2024]
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 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 IEA
Inferred from Electronic Annotation
more info
  
enables heparin binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding IEA
Inferred from Electronic Annotation
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
located_in cell surface IEA
Inferred from Electronic Annotation
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 
is_active_in collagen-containing extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
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 IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular space ISO
Inferred from Sequence Orthology
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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