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    LOC4344480 U-box domain-containing protein 4 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344480, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4344480
    Gene description
    U-box domain-containing protein 4
    Locus tag
    OSNPB_080110500
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryza sativa Japonica Group
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
    Expression
    Broad expression in roots before flowering (RPKM 55.4), leaves before flowering (RPKM 16.1) and 6 other tissues See more
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    Genomic context

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    See LOC4344480 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (556882..562259)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (551539..556922)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene phytolongin Phyl1.1 Neighboring gene glycosyltransferase BC10-like Neighboring gene uncharacterized LOC4344481 Neighboring gene phospholipase SGR2

    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. The E3 ligase OsPUB15 interacts with the receptor-like kinase PID2 and regulates plant cell death and innate immunity. Wang J, et al. BMC Plant Biol, 2015 Feb 13. PMID 25849162, Free PMC Article
    2. OsPUB15, an E3 ubiquitin ligase, functions to reduce cellular oxidative stress during seedling establishment. Park JJ, et al. Plant J, 2011 Jan. PMID 21223385
    3. 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. OsPUB15 physically interacted with the kinase domain of PID2 (PID2K) in vitro and in vivo and the ARM repeat domain of OsPUB15 was essential for the interaction. PID2K possessed kinase activity and was able to phosphorylate OsPUB15.
      Title: The E3 ligase OsPUB15 interacts with the receptor-like kinase PID2 and regulates plant cell death and innate immunity.
    2. PUB15 is a regulator that reduces reactive oxygen species (ROS) stress and cell death.
      Title: OsPUB15, an E3 ubiquitin ligase, functions to reduce cellular oxidative stress during seedling establishment.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    U-box domain-containing protein 4
    Names
    Os08g0110500
    P0007D08.34
    putative arm repeat-containing protein
    putative armadillo/beta-catenin repeat family protein

    NCBI Reference Sequences (RefSeq)

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    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      556882..562259
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015795011.3 → XP_015650497.1  U-box domain-containing protein 4

      UniProtKB/TrEMBL
      A0A0P0XB34, B8BA51, Q0J8I1, Q6ZC56
      Conserved Domains (3) summary
      smart00504
      Location:232 → 295
      Ubox; Modified RING finger domain
      PLN03200
      Location:583 → 817
      PLN03200; cellulose synthase-interactive protein; Provisional
      sd00043
      Location:576 → 608
      ARM; armadillo repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version

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