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

Gene ID: 566140, updated on 2-Nov-2024

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, Nov 2024]
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 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

Gene LinkOut

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Molecular Biology Databases
Research Materials