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    cthrc1b collagen triple helix repeat containing 1b [ Danio rerio (zebrafish) ]

    Gene ID: 566140, updated on 4-Jan-2025

    Summary

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    Official Symbol
    cthrc1bprovided by ZNC
    Official Full Name
    collagen triple helix repeat containing 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050420-46
    See related
    Ensembl:ENSDARG00000001971 AllianceGenome:ZFIN:ZDB-GENE-050420-46
    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:ch211-236p22.2
    Summary
    Predicted to be part of collagen trimer. Human ortholog(s) of this gene implicated in Barrett's esophagus. Orthologous to human CTHRC1 (collagen triple helix repeat containing 1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See cthrc1b in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (47454586..47483115, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (47519598..47548046, complement)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene septin 7b Neighboring gene solute carrier family 25 member 32b Neighboring gene CUB and Sushi multiple domains 3a Neighboring gene eukaryotic translation initiation factor 3, subunit H, a

    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. Structure, evolution and expression of collagen XXVIII: Lessons from the zebrafish. Gebauer JM, et al. Matrix Biol, 2016 Jan. PMID 26235539
    2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    collagen triple helix repeat-containing protein 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_007127.7 Reference GRCz11 Primary Assembly

      Range
      47454586..47483115 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_689410.8 → XP_694502.4  collagen triple helix repeat-containing protein 1

      UniProtKB/TrEMBL
      A0A8N7UR77, F6P0H3
      Related
      ENSDARP00000117902.2, ENSDART00000147072.3
      Conserved Domains (1) summary
      pfam01391
      Location:44 → 79
      Collagen; Collagen triple helix repeat (20 copies)
    Nucleotide Protein Strain
    Heading Accession and Version

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