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    colgalt1b collagen beta(1-O)galactosyltransferase 1b [ Danio rerio (zebrafish) ]

    Gene ID: 567859, updated on 28-Oct-2024

    Summary

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    Official Symbol
    colgalt1bprovided by ZNC
    Official Full Name
    collagen beta(1-O)galactosyltransferase 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070424-114
    See related
    Ensembl:ENSDARG00000058270 AllianceGenome:ZFIN:ZDB-GENE-070424-114
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    glt25d1; colgalt1; si:ch211-114l13.7
    Summary
    Predicted to enable procollagen galactosyltransferase activity. Predicted to be involved in positive regulation of collagen fibril organization. Predicted to be located in endoplasmic reticulum lumen. Is expressed in female organism. Human ortholog(s) of this gene implicated in brain small vessel disease 3. Orthologous to human COLGALT1 (collagen beta(1-O)galactosyltransferase 1). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    all
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    Genomic context

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    See colgalt1b in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (58014831..58036443, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (57279149..57300761, complement)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene si:ch211-114l13.9 Neighboring gene nucleoredoxin like 1 Neighboring gene uncharacterized LOC137496053 Neighboring gene tripartite motif containing 35-1 Neighboring gene caspase 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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    Related articles in PubMed

    1. Loss of function of Colgalt1 disrupts collagen post-translational modification and causes musculoskeletal defects. Geister KA, et al. Dis Model Mech, 2019 Jun 17. PMID 31101663, Free PMC Article
    2. Brain transcriptome analysis of a familial Alzheimer's disease-like mutation in the zebrafish presenilin 1 gene implies effects on energy production. Newman M, et al. Mol Brain, 2019 May 3. PMID 31053140, 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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

    Function Evidence Code Pubs
    enables glycosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables procollagen galactosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables procollagen galactosyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of collagen fibril organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum lumen ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    procollagen galactosyltransferase 1
    Names
    collagen beta(1-O)galactosyltransferase 1
    glycosyltransferase 25 domain containing 1
    glycosyltransferase 25 family member 1
    hydroxylysine galactosyltransferase 1
    NP_001103992.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001110522.1 → NP_001103992.1  procollagen galactosyltransferase 1 precursor

      See identical proteins and their annotated locations for NP_001103992.1

      Status: PROVISIONAL

      Source sequence(s)
      BX469930
      UniProtKB/Swiss-Prot
      A5PMF6
      Related
      ENSDARP00000075565.6, ENSDART00000081122.7
      Conserved Domains (2) summary
      cl01298
      Location:322 → 507
      Glyco_transf_25; Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of ...
      cl11394
      Location:38 → 93
      Glyco_tranf_GTA_type; Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold

    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_007112.7 Reference GRCz11 Primary Assembly

      Range
      58014831..58036443 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A5PMF6.1 GenPept UniProtKB/Swiss-Prot:A5PMF6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.