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    col20a1 collagen type XX alpha 1 chain [ Danio rerio (zebrafish) ]

    Gene ID: 101884357, updated on 12-Sep-2024

    Summary

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    Gene symbol
    col20a1
    Gene description
    collagen type XX alpha 1 chain
    See related
    Ensembl:ENSDARG00000037517
    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
    Orthologs
    human mouse all
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    Genomic context

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    See col20a1 in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    42
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (20448905..20511954)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (20522550..20585623)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 35 member C2 Neighboring gene TATA-box binding protein associated factor 13 Neighboring gene dolichyl-phosphate mannosyltransferase subunit 1, catalytic Neighboring gene activity-dependent neuroprotector homeobox b

    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 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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    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    General protein information

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    Preferred Names
    collagen alpha-1(XX) chain

    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_007134.7 Reference GRCz11 Primary Assembly

      Range
      20448905..20511954
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005162123.5 → XP_005162180.1  collagen alpha-1(XX) chain isoform X1

      UniProtKB/TrEMBL
      A0A8M2B999
      Related
      ENSDARP00000113029.1, ENSDART00000132920.3
      Conserved Domains (6) summary
      pfam01391
      Location:1347 → 1406
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:559 → 636
      FN3; Fibronectin type 3 domain
      cd00063
      Location:738 → 825
      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 ...
      cd01482
      Location:265 → 428
      vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
      pfam00041
      Location:831 → 910
      fn3; Fibronectin type III domain
      cl22861
      Location:1037 → 1230
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    2. XM_005162125.5 → XP_005162182.1  collagen alpha-1(XX) chain isoform X2

      UniProtKB/TrEMBL
      A0A8M2B8Y2
      Conserved Domains (6) summary
      pfam01391
      Location:1347 → 1406
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:559 → 636
      FN3; Fibronectin type 3 domain
      cd00063
      Location:738 → 825
      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 ...
      cd01482
      Location:265 → 428
      vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
      pfam00041
      Location:831 → 910
      fn3; Fibronectin type III domain
      cl22861
      Location:1037 → 1230
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    3. XM_017353714.3 → XP_017209203.1  collagen alpha-1(XX) chain isoform X3

      UniProtKB/TrEMBL
      A0A8M6YVE1

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395143.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      175495..235599
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021473628.2 → XP_021329303.1  collagen alpha-1(XX) chain isoform X1

      UniProtKB/TrEMBL
      A0A8M9PQK5
      Conserved Domains (7) summary
      pfam01391
      Location:1347 → 1406
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:559 → 636
      FN3; Fibronectin type 3 domain
      cd00063
      Location:738 → 825
      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 ...
      cd01482
      Location:265 → 428
      vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
      pfam00041
      Location:831 → 908
      fn3; Fibronectin type III domain
      cl21522
      Location:934 → 995
      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 ...
      cl22861
      Location:1037 → 1230
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    2. XM_021473629.2 → XP_021329304.1  collagen alpha-1(XX) chain isoform X2

      UniProtKB/TrEMBL
      A0A8M9PWU0
      Conserved Domains (7) summary
      pfam01391
      Location:1347 → 1406
      Collagen; Collagen triple helix repeat (20 copies)
      smart00060
      Location:559 → 636
      FN3; Fibronectin type 3 domain
      cd00063
      Location:738 → 825
      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 ...
      cd01482
      Location:265 → 428
      vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
      pfam00041
      Location:831 → 908
      fn3; Fibronectin type III domain
      cl21522
      Location:934 → 995
      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 ...
      cl22861
      Location:1037 → 1230
      LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

    3. XM_068219045.1 → XP_068075146.1  collagen alpha-1(XX) chain isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version

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