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    LOC4331234 lysine-specific demethylase JMJ25 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4331234, updated on 25-Jan-2024

    Summary

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    Gene symbol
    LOC4331234
    Gene description
    lysine-specific demethylase JMJ25
    Locus tag
    OSNPB_020828900
    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
    Also known as
    OJ1124_D06.2-1; OJ1124_D06.2-2
    Expression
    Broad expression in flowers (RPKM 3.5), flower buds (RPKM 2.2) and 5 other tissues See more
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    Genomic context

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    See LOC4331234 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (35624122..35630806)

    Chromosome 2 - NC_029257.1Genomic Context describing neighboring genes Neighboring gene transcription factor TCP7 Neighboring gene uncharacterized LOC107279927 Neighboring gene uncharacterized LOC112937874 Neighboring gene replication protein A 32 kDa subunit A-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029257.1 Chromosome 2 Reference IRGSP-1.0 Primary Assembly

    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. 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 chromatin DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone H3K9 demethylase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables transcription coregulator activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of histone deacetylase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysine-specific demethylase JMJ25
    Names
    Os02g0828900
    P0452F04.49-1
    P0452F04.49-2
    putative DNA-binding protein PD3, chloroplast

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029257.1 Reference IRGSP-1.0 Primary Assembly

      Range
      35624122..35630806
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015768298.2 → XP_015623784.1  lysine-specific demethylase JMJ25

      UniProtKB/TrEMBL
      B9F4N3, Q0DW71, Q6K7P0
      Conserved Domains (3) summary
      smart00558
      Location:605 → 677
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      pfam10497
      Location:168 → 228
      zf-4CXXC_R1; Zinc-finger domain of monoamine-oxidase A repressor R1
      cl40423
      Location:811 → 923
      cupin_RmlC-like; RmlC-like cupin superfamily
    Nucleotide Protein
    Heading Accession and Version

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