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    LOC9268736 probable lysine-specific demethylase SE14 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9268736, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC9268736
    Gene description
    probable lysine-specific demethylase SE14
    Locus tag
    OSNPB_030151300
    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 19.1), flower buds (RPKM 15.8) and 6 other tissues See more
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    Genomic context

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    See LOC9268736 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (2842082..2850632)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (2833113..2841685)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene inorganic phosphate transporter 1-2-like Neighboring gene uncharacterized LOC4331639 Neighboring gene uncharacterized LOC4331642 Neighboring gene GCN5-related N-acetyltransferase 8

    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
    2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    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
    probable lysine-specific demethylase SE14
    Names
    Os03g0151300
    Os03g0151400
    lysine-specific demethylase SE14

    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
      2842082..2850632
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015774994.3 → XP_015630480.1  probable lysine-specific demethylase SE14 isoform X1

      UniProtKB/Swiss-Prot
      C7IZW4, Q10RP4
      UniProtKB/TrEMBL
      A3AE68
      Conserved Domains (4) summary
      sd00017
      Location:1402 → 1424
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02373
      Location:262 → 381
      JmjC; JmjC domain, hydroxylase
      pfam02375
      Location:31 → 64
      JmjN; jmjN domain
      pfam13465
      Location:1449 → 1473
      zf-H2C2_2; Zinc-finger double domain

    2. XM_015774997.3 → XP_015630483.1  probable lysine-specific demethylase SE14 isoform X2

      UniProtKB/TrEMBL
      A3AE68
      Conserved Domains (4) summary
      sd00017
      Location:1357 → 1379
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02373
      Location:262 → 381
      JmjC; JmjC domain, hydroxylase
      pfam02375
      Location:31 → 64
      JmjN; jmjN domain
      pfam13465
      Location:1404 → 1428
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein
    Heading Accession and Version

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