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    LOC4339589 probable glucuronosyltransferase Os05g0559600 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339589, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4339589
    Gene description
    probable glucuronosyltransferase Os05g0559600
    Locus tag
    OSNPB_050559600
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Also known as
    GT43E; OsGT43E; OJ1115_B06.1
    Expression
    Ubiquitous expression in roots before flowering (RPKM 25.9), flowers (RPKM 22.6) and 6 other tissues See more
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    Genomic context

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    See LOC4339589 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (28045342..28049820)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (27860559..27865053)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107276888 Neighboring gene auxin-responsive protein IAA19-like Neighboring gene transfer RNA serine (anticodon CGA) Neighboring gene golgin candidate 5

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome profiling of various organs at different developmental stages in rice Transcriptome profiling of various organs at different developmental stages in rice
    • Description: Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering, milk grains and mature seeds
    • BioProject: PRJNA243371
    • Publication: PMID 26387578
    • Analysis date: Fri Dec 15 20:02:59 2017

    Bibliography

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    Related articles in PubMed

    1. Functional roles of rice glycosyltransferase family GT43 in xylan biosynthesis. Lee C, et al. Plant Signal Behav, 2014. PMID 24525904, Free PMC Article
    2. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Rice Full-Length cDNA Consortium, et al. Science, 2003 Jul 18. PMID 12869764
    3. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables xylosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in glucuronoxylan biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in plant-type secondary cell wall biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable beta-1,4-xylosyltransferase GT43E
    Names
    GT43 family glycosyltransferase E
    LOC_Os05g48600
    OSJNBa0001A14.15
    Probable beta-1,4-xylosyltransferase GT43E
    NP_001407801.1
    NP_001407802.1
    XP_025881451.1
    XP_066166383.1

    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_001420872.1 → NP_001407801.1  probable beta-1,4-xylosyltransferase GT43E isoform 1

      Status: VALIDATED

      Source sequence(s)
      CI132522, CI308630, CI531501, KJ206902
      UniProtKB/Swiss-Prot
      A0A023NDJ9, Q6AT32

    2. NM_001420873.1 → NP_001407802.1  probable beta-1,4-xylosyltransferase GT43E isoform 2

      Status: VALIDATED

      Source sequence(s)
      CI132522, CI308630, CI531501, CI762781, KJ206902

    RefSeqs of Annotated Genomes: GCF_034140825.1-RS_2024_06

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

    Reference ASM3414082v1 Primary Assembly

    Genomic

    1. NC_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      28045342..28049820
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026025666.2 → XP_025881451.1  probable beta-1,4-xylosyltransferase GT43E isoform X1

      UniProtKB/Swiss-Prot
      A0A023NDJ9, Q6AT32
      UniProtKB/TrEMBL
      B9FHX5
      Conserved Domains (1) summary
      cd00218
      Location:195 → 429
      GlcAT-I; Beta1,3-glucuronyltransferase I (GlcAT-I) is involved in the initial steps of proteoglycan synthesis

    2. XM_066310286.1 → XP_066166383.1  probable beta-1,4-xylosyltransferase GT43E isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6AT32.1 GenPept UniProtKB/Swiss-Prot:Q6AT32

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