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    LOC4337598 E3 ubiquitin-protein ligase XB3-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337598, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4337598
    Gene description
    E3 ubiquitin-protein ligase XB3-like
    Locus tag
    OSNPB_050112000
    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
    XB3; OsJ_16866
    Expression
    Ubiquitous expression in roots before flowering (RPKM 90.2), flowers (RPKM 67.5) and 6 other tissues See more
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    Genomic context

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    See LOC4337598 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (651005..654478, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (640125..643313, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene putative protein phosphatase 2C 46 Neighboring gene pectin acetylesterase 5 Neighboring gene probable clathrin assembly protein At4g32285 Neighboring gene dof zinc finger protein DOF3.6

    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. 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

    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 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase XB3
    Names
    Ankyrin repeat domain and RING finger-containing protein XB3
    LOC_Os05g02130
    P0016H04.16
    RING-type E3 ubiquitin transferase XB3
    XA21-binding protein 3
    putative ankyrin repeat domain-containing protein 28
    NP_001389405.1

    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_001402476.1 → NP_001389405.1  E3 ubiquitin-protein ligase XB3

      Status: VALIDATED

      Source sequence(s)
      AK107650, CF281853, CF305655, CI000123, CI194242, CI303068
      UniProtKB/Swiss-Prot
      A0A0P0WH25, Q65XV2, Q8LLW2
      UniProtKB/TrEMBL
      A0A0P0WHE9

    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
      651005..654478 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q65XV2.1 GenPept UniProtKB/Swiss-Prot:Q65XV2

    Gene LinkOut

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