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    LOC4337022 OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 5 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4337022, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4337022
    Gene description
    OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 5
    Locus tag
    OSNPB_040619500
    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
    Ubiquitous expression in roots before flowering (RPKM 33.2), mature seeds (RPKM 32.9) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (31982086..31985007)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (31474361..31477335)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene F-box/kelch-repeat protein At5g60570 Neighboring gene cold-responsive protein kinase 1 Neighboring gene probable receptor-like protein kinase At1g30570 Neighboring gene F-box/WD-40 repeat-containing protein At5g21040

    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 cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein deubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 5
    Names
    OTU domain-containing protein 6B
    Os04g0619500
    deubiquitinase OTUD6B

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      31982086..31985007
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777911.3 → XP_015633397.1  OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 5

      UniProtKB/TrEMBL
      A0A0N7KJQ2, A2XXN3, Q0JA24, Q7XTU0
      Conserved Domains (2) summary
      COG5539
      Location:23 → 319
      COG5539; Predicted cysteine protease (OTU family) [Posttranslational modification, protein turnover, chaperones]
      pfam02338
      Location:180 → 317
      OTU; OTU-like cysteine protease
    Nucleotide Protein
    Heading Accession and Version

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