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    col5a2a collagen, type V, alpha 2a [ Danio rerio (zebrafish) ]

    Gene ID: 564821, updated on 9-Dec-2024

    Summary

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    Official Symbol
    col5a2aprovided by ZNC
    Official Full Name
    collagen, type V, alpha 2aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030616-13
    See related
    Ensembl:ENSDARG00000031678 AllianceGenome:ZFIN:ZDB-GENE-030616-13
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    COL5A2; col5a2l; im:7038599; wu:fa13f03; wu:fa98d01; wu:fj05e03; si:dz167c3.3; si:by143e18.1; si:ch211-198b21.5
    Summary
    Predicted to be an extracellular matrix structural constituent conferring tensile strength. Predicted to be involved in extracellular matrix organization. Predicted to be located in extracellular region. Predicted to be part of collagen type V trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including epidermis; median fin fold; paraxial mesoderm; pectoral fin; and pharyngeal arch. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome and Ehlers-Danlos syndrome classic type 2. Orthologous to human COL5A2 (collagen type V alpha 2 chain). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See col5a2a in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    54
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (42652073..42696404, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (42850286..42894617, complement)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137496417 Neighboring gene GULP PTB domain containing engulfment adaptor 1a Neighboring gene FKBP prolyl isomerase 7 Neighboring gene titin, tandem duplicate 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Proteomics Analysis of Extracellular Matrix Remodeling During Zebrafish Heart Regeneration. Garcia-Puig A, et al. Mol Cell Proteomics, 2019 Sep. PMID 31221719, Free PMC Article
    2. Nongenomic effects and mechanistic study of butyl benzyl phthalate-induced thyroid disruption: Based on integrated in vitro, in silico assays and proteome analysis. Li J, et al. Sci Total Environ, 2022 Aug 25. PMID 35525365
    3. Phenotyping Zebrafish Mutant Models to Assess Candidate Genes Associated with Aortic Aneurysm. Prendergast A, et al. Genes (Basel), 2022 Jan 10. PMID 35052463, Free PMC Article
    4. Wnt signaling controls pro-regenerative Collagen XII in functional spinal cord regeneration in zebrafish. Wehner D, et al. Nat Commun, 2017 Jul 25. PMID 28743881, Free PMC Article
    5. Collagen duplicate genes of bone and cartilage participate during regeneration of zebrafish fin skeleton. Duran I, et al. Gene Expr Patterns, 2015 Sep-Nov. PMID 26256560

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    collagen, type V, alpha 2a

    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_001145782.1 → NP_001139254.1  collagen, type V, alpha 2a precursor

      Status: PROVISIONAL

      Source sequence(s)
      BX640465
      UniProtKB/TrEMBL
      A0A8M1NTE7
      Related
      ENSDARP00000122378.1, ENSDART00000144744.2
      Conserved Domains (3) summary
      pfam01391
      Location:690 → 747
      Collagen; Collagen triple helix repeat (20 copies)
      pfam00093
      Location:36 → 91
      VWC; von Willebrand factor type C domain
      pfam01410
      Location:1260 → 1490
      COLFI; Fibrillar collagen C-terminal domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007120.7 Reference GRCz11 Primary Assembly

      Range
      42652073..42696404 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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