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    LOC4337533 E3 ubiquitin-protein ligase ORTHRUS 2 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337533, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4337533
    Gene description
    E3 ubiquitin-protein ligase ORTHRUS 2
    Locus tag
    OSNPB_050102600
    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 milk grains (RPKM 24.8), flower buds (RPKM 8.4) and 4 other tissues See more
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    Genomic context

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    See LOC4337533 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (163135..168020)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (155044..160215)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene protein NEN4 Neighboring gene uncharacterized LOC9270597 Neighboring gene uncharacterized LOC4337532 Neighboring gene protein MEI2-like 3 Neighboring gene vacuolar protein sorting-associated protein 60.2

    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of gene expression via chromosomal CpG island methylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase ORTHRUS 2
    Names
    Os05g0102600

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      163135..168020
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015781973.3 → XP_015637459.1  E3 ubiquitin-protein ligase ORTHRUS 2

      UniProtKB/TrEMBL
      A0A0P0WH28, A0A5S6R743, B8AWJ2, Q75M36, Q9FW25
      Conserved Domains (4) summary
      COG5271
      Location:564 → 733
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      pfam02182
      Location:251 → 413
      SAD_SRA; SAD/SRA domain
      cl17238
      Location:132 → 174
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
      cl22851
      Location:12 → 57
      PHD_SF; PHD finger superfamily
    Nucleotide Protein
    Heading Accession and Version

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