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    col5a1 procollagen, type V, alpha 1 [ Danio rerio (zebrafish) ]

    Gene ID: 100334431, updated on 27-Dec-2024

    Summary

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    Official Symbol
    col5a1provided by ZNC
    Official Full Name
    procollagen, type V, alpha 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041105-6
    See related
    Ensembl:ENSDARG00000012593 AllianceGenome:ZFIN:ZDB-GENE-041105-6
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    si:dkey-87m23.1
    Summary
    Predicted to be an extracellular matrix structural constituent. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Is expressed in several structures, including dermis; dermomyotome; head; neural crest; and notochord. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome and Ehlers-Danlos syndrome classic type 1. Orthologous to human COL5A1 (collagen type V alpha 1 chain). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See col5a1 in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    66
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (6556581..6725542)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (6624386..6803286)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488861 Neighboring gene uncharacterized LOC137488779 Neighboring gene olfactomedin 1b Neighboring gene uncharacterized LOC795570

    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. Dual function of perivascular fibroblasts in vascular stabilization in zebrafish. Rajan AM, et al. PLoS Genet, 2020 Oct. PMID 33104690, Free PMC Article
    2. Tankyrase Inhibition Attenuates Cardiac Dilatation and Dysfunction in Ischemic Heart Failure. Wang H, et al. Int J Mol Sci, 2022 Sep 2. PMID 36077457, Free PMC Article
    3. Col11a1a Expression Is Required for Zebrafish Development. Hardy MJ, et al. J Dev Biol, 2020 Aug 28. PMID 32872105, Free PMC Article
    4. The expression patterns of minor fibrillar collagens during development in zebrafish. Fang M, et al. Gene Expr Patterns, 2010 Oct-Dec. PMID 20647059, Free PMC Article
    5. 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

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Dual function of perivascular fibroblasts in vascular stabilization in zebrafish.
      Title: Dual function of perivascular fibroblasts in vascular stabilization in zebrafish.
    Submit: New GeneRIF Correction

    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
    		  
    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 alpha-1(V) chain
    Names
    collagen type V alpha-1

    NCBI Reference Sequences (RefSeq)

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    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_007132.7 Reference GRCz11 Primary Assembly

      Range
      6556581..6725542
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021468998.2 → XP_021324673.1  collagen alpha-1(V) chain isoform X1

      UniProtKB/TrEMBL
      A0A8M9PD17
      Related
      ENSDARP00000120854.2, ENSDART00000139598.4
      Conserved Domains (5) summary
      pfam01391
      Location:776 → 831
      Collagen; Collagen triple helix repeat (20 copies)
      smart00210
      Location:16 → 207
      TSPN; Thrombospondin N-terminal -like domains
      PHA03169
      Location:941 → 1115
      PHA03169; hypothetical protein; Provisional
      pfam01410
      Location:1796 → 2022
      COLFI; Fibrillar collagen C-terminal domain
      pfam09606
      Location:637 → 974
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

    2. XM_021468999.2 → XP_021324674.1  collagen alpha-1(V) chain isoform X2

      UniProtKB/TrEMBL
      A0A8M9PIP9
      Conserved Domains (5) summary
      pfam01391
      Location:776 → 831
      Collagen; Collagen triple helix repeat (20 copies)
      smart00210
      Location:16 → 207
      TSPN; Thrombospondin N-terminal -like domains
      PHA03169
      Location:941 → 1115
      PHA03169; hypothetical protein; Provisional
      pfam01410
      Location:1796 → 2022
      COLFI; Fibrillar collagen C-terminal domain
      pfam09606
      Location:637 → 974
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    Nucleotide Protein Strain
    Heading Accession and Version

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