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    XGD1 xylogalacturonan deficient 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 833302, updated on 18-Sep-2024

    Summary

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    Official Symbol
    XGD1
    Official Full Name
    xylogalacturonan deficient 1
    Primary source
    TAIR:AT5G33290
    Locus tag
    AT5G33290
    See related
    Araport:AT5G33290
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    F19N2.10; F19N2_10; xylogalacturonan deficient 1
    Summary
    Acts as a xylogalacturonan xylosyltransferase within the XGA biosynthesis pathway. Involved in pectin biosynthesis.
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    Genomic context

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    See XGD1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    4
    Sequence:
    Chromosome: 5; NC_003076.8 (12558154..12562020)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Voltage-gated chloride channel family protein Neighboring gene pseudo Neighboring gene chromosome-associated kinesin-like protein Neighboring gene pseudo

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Identification of a xylogalacturonan xylosyltransferase involved in pectin biosynthesis in Arabidopsis. Jensen JK, et al. Plant Cell, 2008 May. PMID 18460606, Free PMC Article
    2. bHLH05 is an interaction partner of MYB51 and a novel regulator of glucosinolate biosynthesis in Arabidopsis. Frerigmann H, et al. Plant Physiol, 2014 Sep. PMID 25049362, Free PMC Article
    3. Putative glycosyltransferases and other plant Golgi apparatus proteins are revealed by LOPIT proteomics. Nikolovski N, et al. Plant Physiol, 2012 Oct. PMID 22923678, Free PMC Article
    4. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Results confirm that the XGD1 protein is a XGA xylosyltransferase.
      Title: Identification of a xylogalacturonan xylosyltransferase involved in pectin biosynthesis in Arabidopsis.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_122853.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables UDP-xylosyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables xylogalacturonan beta-1,3-xylosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within pectin biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein glycosylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within xylogalacturonan metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus HDA PubMed 
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in endosome HDA PubMed 
    located_in trans-Golgi network HDA PubMed 

    General protein information

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    Preferred Names
    xylogalacturonan deficient 1
    NP_198314.2
    • xylogalacturonan deficient 1 (XGD1); CONTAINS InterPro DOMAIN/s: Exostosin-like (InterPro:IPR004263); BEST Arabidopsis thaliana protein match is: Exostosin family protein (TAIR:AT3G42180.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      12558154..12562020
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_122853.4 → NP_198314.2  xylogalacturonan deficient 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_198314.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q94AA9
      UniProtKB/TrEMBL
      A0A178UBQ2, W8PUC9
      Conserved Domains (1) summary
      pfam03016
      Location:160 → 451
      Exostosin; Exostosin family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q94AA9.2

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