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    LOC4324588 histone-lysine N-methyltransferase ATX5 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324588, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4324588
    Gene description
    histone-lysine N-methyltransferase ATX5
    Locus tag
    OSNPB_010218800
    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 roots after flowering (RPKM 10.6), leaves before flowering (RPKM 9.7) and 6 other tissues See more
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    Genomic context

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    See LOC4324588 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (6517090..6524384, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (6507347..6514915, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene protein FLOWERING LOCUS T 1 Neighboring gene ABC transporter D family member 2, chloroplastic Neighboring gene histone-lysine N-methyltransferase ATX3 Neighboring gene uncharacterized LOC4324590

    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. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. 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 protein binding 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 

    General protein information

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    Preferred Names
    histone-lysine N-methyltransferase ATX5
    Names
    Os01g0218800
    P0489G09.14
    putative trithorax 3

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      6517090..6524384 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756364.3 → XP_015611850.1  histone-lysine N-methyltransferase ATX5

      UniProtKB/TrEMBL
      A0A0P0V0A1, B8AAL0, Q0JPK0, Q5NAU4
      Conserved Domains (5) summary
      cd15495
      Location:563 → 609
      PHD_ATX3_4_5_like; PHD finger found in Arabidopsis thaliana histone-lysine N-methyltransferase arabidopsis trithorax-like protein ATX3, ATX4, ATX5, and similar proteins
      cd15517
      Location:379 → 428
      PHD_TCF19_like; PHD finger found in Transcription factor 19 (TCF-19), Lysine-specific demethylase KDM5A and KDM5B, and other similar proteins
      cd10518
      Location:836 → 987
      SET_SETD1-like; SET domain (including post-SET domain) found in SET domain-containing proteins (SETD1A/SETD1B), histone-lysine N-methyltransferases (KMT2A/KMT2B/KMT2C/KMT2D) and similar proteins
      cl02554
      Location:190 → 292
      PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...
      cl22851
      Location:618 → 729
      PHD_SF; PHD finger superfamily
    Nucleotide Protein
    Heading Accession and Version

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