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    LOC4349776 DDT domain-containing protein PTM [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4349776, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4349776
    Gene description
    DDT domain-containing protein PTM
    Locus tag
    OSNPB_110148700
    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 9.1), leaves before flowering (RPKM 8.3) and 6 other tissues See more
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    Genomic context

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    See LOC4349776 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 11 NC_089045.1 (2292996..2301477, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 11 NC_029266.1 (2247703..2256179, complement)

    Chromosome 11 - NC_089045.1Genomic Context describing neighboring genes Neighboring gene pyruvate kinase 1, cytosolic-like Neighboring gene uncharacterized LOC4349775 Neighboring gene uncharacterized LOC4349777 Neighboring gene AT-hook motif nuclear-localized protein 7

    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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    Homology

    General protein information

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    Preferred Names
    DDT domain-containing protein PTM
    Names
    Os11g0148700

    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_089045.1 Reference ASM3414082v1 Primary Assembly

      Range
      2292996..2301477 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015761750.3 → XP_015617236.1  DDT domain-containing protein PTM

      UniProtKB/TrEMBL
      B9G9F1, F4MG84, Q53PX0
      Conserved Domains (6) summary
      cd15532
      Location:551 → 592
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam02791
      Location:335 → 391
      DDT; DDT domain
      pfam15612
      Location:450 → 481
      WHIM1; WSTF, HB1, Itc1p, MBD9 motif 1
      cl00040
      Location:1327 → 1356
      C1; protein kinase C conserved region 1 (C1 domain) superfamily
      cl02573
      Location:181 → 228
      Tudor_SF; Tudor domain superfamily
      cl22851
      Location:1552 → 1586
      PHD_SF; PHD finger superfamily
    Nucleotide Protein
    Heading Accession and Version

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