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    LOC4333015 lysine-specific demethylase JMJ21 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4333015, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4333015
    Gene description
    lysine-specific demethylase JMJ21
    Locus tag
    OSNPB_030389900
    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 leaves before flowering (RPKM 24.5), roots after flowering (RPKM 15.7) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (15966768..15973981)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (15614215..15621492)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene transfer RNA methionine (anticodon CAU) Neighboring gene phospho-2-dehydro-3-deoxyheptonate aldolase 1, chloroplastic-like Neighboring gene small ribosomal subunit protein eS6 Neighboring gene serine/threonine-protein kinase SAPK1-like

    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 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysine-specific demethylase JMJ21
    Names
    F-box and other domain-containing protein
    F-box protein At1g78280
    Os03g0389900

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      15966768..15973981
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015774890.3 → XP_015630376.1  lysine-specific demethylase JMJ21

      UniProtKB/TrEMBL
      A2XHI8, B9F8T2, Q75LR4
      Conserved Domains (3) summary
      pfam12937
      Location:15 → 61
      F-box-like; F-box-like
      cl21453
      Location:795 → 852
      PKc_like; Protein Kinases, catalytic domain
      cl21464
      Location:145 → 360
      cupin_like; Conserved domain found in cupin and related proteins
    Nucleotide Protein
    Heading Accession and Version

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