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    col7a1 collagen, type VII, alpha 1 [ Danio rerio (zebrafish) ]

    Gene ID: 100332562, updated on 27-Mar-2024

    Summary

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    Official Symbol
    col7a1provided by ZNC
    Official Full Name
    collagen, type VII, alpha 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-2427
    See related
    Ensembl:ENSDARG00000021720 AllianceGenome:ZFIN:ZDB-GENE-030131-2427
    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
    fc07e08; wu:fc07e08
    Summary
    Predicted to enable serine-type endopeptidase inhibitor activity. Predicted to act upstream of or within cell adhesion. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in hypodermis. Human ortholog(s) of this gene implicated in epidermolysis bullosa dystrophica (multiple) and nonsyndromic congenital nail disorder 8. Orthologous to human COL7A1 (collagen type VII alpha 1 chain). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    chromosome: 6
    Exon count:
    121
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (40184898..40312162, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (40187362..40314620, complement)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene probable G-protein coupled receptor 22 Neighboring gene transfer RNA phenylalanine (anticodon GAA) Neighboring gene tubulin tyrosine ligase-like family, member 3 Neighboring gene solute carrier family 4 member 8

    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. Elucidation of possible molecular mechanisms underlying the estrogen-induced disruption of cartilage development in zebrafish larvae. He H, et al. Toxicol Lett, 2018 Jun 1. PMID 29499231
    2. Comprehensive Mapping and Dynamics of Site-Specific Prolyl-Hydroxylation, Lysyl-Hydroxylation and Lysyl O-Glycosylation of Collagens Deposited in ECM During Zebrafish Heart Regeneration. Sarohi V, et al. Front Mol Biosci, 2022. PMID 35782869, Free PMC Article
    3. Zebrafish: a model system to study heritable skin diseases. Li Q, et al. J Invest Dermatol, 2011 Mar. PMID 21191402, Free PMC Article
    4. Fishing for collagen function: About development, regeneration and disease. Bretaud S, et al. Semin Cell Dev Biol, 2019 May. PMID 30312775
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) 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 conferring tensile strength IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables serine-type endopeptidase inhibitor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in extracellular matrix organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of collagen type IX trimer IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    collagen alpha-1(VII) chain
    Names
    col7a1a

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      40184898..40312162 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021477229.1 → XP_021332904.1  collagen alpha-1(VII) chain isoform X4

      UniProtKB/TrEMBL
      A0A8M9Q739
      Conserved Domains (8) summary
      pfam01391
      Location:2362 → 2420
      Collagen; Collagen triple helix repeat (20 copies)
      cd00063
      Location:1040 → 1124
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00109
      Location:3025 → 3078
      KU; BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure.
      pfam03157
      Location:1413 → 1895
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam00041
      Location:227 → 309
      fn3; Fibronectin type III domain
      pfam00092
      Location:1134 → 1300
      VWA; von Willebrand factor type A domain
      cl00057
      Location:33 → 196
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      cl21522
      Location:592 → 660
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

    2. XM_021477228.1 → XP_021332903.1  collagen alpha-1(VII) chain isoform X3

      UniProtKB/TrEMBL
      A0A8M9Q0T7
      Conserved Domains (8) summary
      pfam01391
      Location:2362 → 2420
      Collagen; Collagen triple helix repeat (20 copies)
      cd00063
      Location:1040 → 1124
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00109
      Location:3056 → 3109
      KU; BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure.
      pfam03157
      Location:1413 → 1895
      Glutenin_hmw; High molecular weight glutenin subunit
      pfam00041
      Location:227 → 309
      fn3; Fibronectin type III domain
      pfam00092
      Location:1134 → 1300
      VWA; von Willebrand factor type A domain
      cl00057
      Location:33 → 196
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
      cl21522
      Location:592 → 660
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

    3. XM_009302596.3 → XP_009300871.1  collagen alpha-1(VII) chain isoform X1

      UniProtKB/TrEMBL
      A0A8M3ATK9
      Conserved Domains (7) summary
      pfam01391
      Location:2362 → 2420
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:505 → 577
      FN3; Fibronectin type 3 domain
      cd00063
      Location:415 → 495
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00109
      Location:3057 → 3110
      KU; BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure.
      pfam00041
      Location:1040 → 1120
      fn3; Fibronectin type III domain
      pfam00092
      Location:1134 → 1300
      VWA; von Willebrand factor type A domain
      cl00057
      Location:33 → 196
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

    4. XM_009302595.3 → XP_009300870.1  collagen alpha-1(VII) chain isoform X2

      UniProtKB/TrEMBL
      A0A8M3B0N2
      Related
      ENSDARP00000128470.1, ENSDART00000154878.3
      Conserved Domains (7) summary
      pfam01391
      Location:2362 → 2420
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:505 → 577
      FN3; Fibronectin type 3 domain
      cd00063
      Location:415 → 495
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00109
      Location:3057 → 3110
      KU; BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure.
      pfam00041
      Location:1040 → 1120
      fn3; Fibronectin type III domain
      pfam00092
      Location:1134 → 1300
      VWA; von Willebrand factor type A domain
      cl00057
      Location:33 → 196
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    Nucleotide Protein
    Heading Accession and Version

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