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    xylt2 xylosyltransferase II [ Danio rerio (zebrafish) ]

    Gene ID: 563446, updated on 27-Mar-2024

    Summary

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    Official Symbol
    xylt2provided by ZNC
    Official Full Name
    xylosyltransferase IIprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-081022-125
    See related
    Ensembl:ENSDARG00000059557 AllianceGenome:ZFIN:ZDB-GENE-081022-125
    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
    zgc:194562
    Summary
    Predicted to enable protein xylosyltransferase activity. Predicted to be involved in chondroitin sulfate proteoglycan biosynthetic process and heparan sulfate proteoglycan biosynthetic process. Predicted to act upstream of or within proteoglycan biosynthetic process. Predicted to be located in Golgi membrane. Human ortholog(s) of this gene implicated in pseudoxanthoma elasticum. Orthologous to human XYLT2 (xylosyltransferase 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (60177693..60226152)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (59886673..59936481)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene si:ch211-120g10.1 Neighboring gene si:ch73-364h19.1 Neighboring gene ras-related protein Rab-26-like Neighboring gene zgc:112183 Neighboring gene SEC14-like protein 1

    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. b3galt6 Knock-Out Zebrafish Recapitulate β3GalT6-Deficiency Disorders in Human and Reveal a Trisaccharide Proteoglycan Linkage Region. Delbaere S, et al. Front Cell Dev Biol, 2020. PMID 33363150, Free PMC Article
    2. Zebrafish Collagen Type I: Molecular and Biochemical Characterization of the Major Structural Protein in Bone and Skin. Gistelinck C, et al. Sci Rep, 2016 Feb 15. PMID 26876635, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein xylosyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein xylosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chondroitin sulfate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chondroitin sulfate proteoglycan biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heparan sulfate proteoglycan biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in heparan sulfate proteoglycan biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within proteoglycan biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    xylosyltransferase 2
    NP_001124250.1
    XP_009298134.1

    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_001130778.1 → NP_001124250.1  xylosyltransferase 2

      See identical proteins and their annotated locations for NP_001124250.1

      Status: PROVISIONAL

      Source sequence(s)
      BC163258
      UniProtKB/TrEMBL
      B3DIV0
      Related
      ENSDARP00000077337.6, ENSDART00000082902.7
      Conserved Domains (2) summary
      pfam02485
      Location:245 → 490
      Branch; Core-2/I-Branching enzyme
      pfam12529
      Location:523 → 701
      Xylo_C; Xylosyltransferase C terminal

    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_007114.7 Reference GRCz11 Primary Assembly

      Range
      60177693..60226152
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009299859.3 → XP_009298134.1  xylosyltransferase 2 isoform X1

      UniProtKB/TrEMBL
      A0A8M3AQZ8
      Conserved Domains (2) summary
      pfam02485
      Location:253 → 498
      Branch; Core-2/I-Branching enzyme
      pfam12529
      Location:531 → 709
      Xylo_C; Xylosyltransferase C terminal
    Nucleotide Protein
    Heading Accession and Version

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