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    LOC4330404 lysine-specific demethylase JMJ706-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4330404, updated on 1-Aug-2024

    Summary

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    Gene symbol
    LOC4330404
    Gene description
    lysine-specific demethylase JMJ706-like
    Locus tag
    OSNPB_020696700
    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
    P0666E12.1
    Expression
    Ubiquitous expression in roots before flowering (RPKM 11.5), roots after flowering (RPKM 9.5) and 5 other tissues See more
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    Genomic context

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    See LOC4330404 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (29128213..29135360)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (28638404..28645796)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene probable xyloglucan endotransglucosylase/hydrolase protein 30 Neighboring gene uncharacterized LOC4330403 Neighboring gene probable transcription factor KAN2 Neighboring gene uncharacterized LOC4330405

    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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    Markers

    • PZA00652_Zea_mays_ssp._parviglumis_Beadle_&_Kato_site_4 (e-PCR)

    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-like
    Names
    B1053A04.29
    Os02g0696700
    retinoblastoma binding protein-like

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      29128213..29135360
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015771121.3 → XP_015626607.1  lysine-specific demethylase JMJ706-like isoform X1

      UniProtKB/TrEMBL
      B8AHB4
      Conserved Domains (3) summary
      pfam02373
      Location:235 → 358
      JmjC; JmjC domain, hydroxylase
      pfam02375
      Location:59 → 91
      JmjN; jmjN domain
      pfam02928
      Location:458 → 510
      zf-C5HC2; C5HC2 zinc finger

    2. XM_015771122.3 → XP_015626608.1  lysine-specific demethylase JMJ706-like isoform X1

      UniProtKB/TrEMBL
      B8AHB4
      Conserved Domains (3) summary
      pfam02373
      Location:235 → 358
      JmjC; JmjC domain, hydroxylase
      pfam02375
      Location:59 → 91
      JmjN; jmjN domain
      pfam02928
      Location:458 → 510
      zf-C5HC2; C5HC2 zinc finger

    3. XM_066307713.1 → XP_066163810.1  lysine-specific demethylase JMJ706-like isoform X2

      UniProtKB/TrEMBL
      B8AHB4
    Nucleotide Protein
    Heading Accession and Version

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