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    LOC4349499 lysine-specific demethylase JMJ706-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4349499, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4349499
    Gene description
    lysine-specific demethylase JMJ706-like
    Locus tag
    OSNPB_100577600
    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
    JMJ706
    Expression
    Broad expression in roots before flowering (RPKM 36.7), roots after flowering (RPKM 24.4) and 5 other tissues See more
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    Genomic context

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    See LOC4349499 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 10 NC_089044.1 (23717742..23723858)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 10 NC_029265.1 (23025609..23031723)

    Chromosome 10 - NC_089044.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4349497 Neighboring gene probable xyloglucan endotransglucosylase/hydrolase protein 29 Neighboring gene probable inactive shikimate kinase like 2, chloroplastic Neighboring gene inactive poly [ADP-ribose] polymerase RCD1

    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
    • 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. Rice jmjC domain-containing gene JMJ706 encodes H3K9 demethylase required for floral organ development. Sun Q, et al. Proc Natl Acad Sci U S A, 2008 Sep 9. PMID 18765808, Free PMC Article
    2. 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 histone H3K4me/H3K4me2/H3K4me3 demethylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysine-specific demethylase JMJ706
    Names
    Jumonji domain-containing protein 706
    LOC_Os10g42690
    Lysine-specific histone demethylase JMJ706
    OSJNBa0035H01.2
    Protein JUMONJI 706
    [histone H3]-trimethyl-L-lysine(9) demethylase JMJ706
    NP_001410040.1
    XP_066160558.1

    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_001423111.1 → NP_001410040.1  lysine-specific demethylase JMJ706

      Status: VALIDATED

      Source sequence(s)
      AK073475, AP014966
      UniProtKB/Swiss-Prot
      A0A0P0XYM9, Q0IVD6, Q336N8, Q8W3G5
      UniProtKB/TrEMBL
      B9G764

    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_089044.1 Reference ASM3414082v1 Primary Assembly

      Range
      23717742..23723858
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066304461.1 → XP_066160558.1  lysine-specific demethylase JMJ706 isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q336N8.1 GenPept UniProtKB/Swiss-Prot:Q336N8

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