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    LOC4336872 myb family transcription factor PHL11 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4336872, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4336872
    Gene description
    myb family transcription factor PHL11
    Locus tag
    OSNPB_040600000
    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
    Biased expression in roots before flowering (RPKM 33.8), leaves before flowering (RPKM 3.7) and 2 other tissues See more
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    Genomic context

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    See LOC4336872 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (30785252..30790833)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (30281858..30284605)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene cell division cycle 20.2, cofactor of APC complex Neighboring gene clathrin interactor EPSIN 1 Neighboring gene uncharacterized LOC4336873 Neighboring gene ubiquinol oxidase 1a, mitochondrial-like Neighboring gene ubiquinol oxidase 1b, mitochondrial-like

    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
    • 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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    myb family transcription factor PHL11
    Names
    Os04g0600000

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      30785252..30790833
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066310125.1 → XP_066166222.1  myb family transcription factor PHL11 isoform X4

    2. XM_066310123.1 → XP_066166220.1  myb family transcription factor PHL11 isoform X3

    3. XM_066310124.1 → XP_066166221.1  myb family transcription factor PHL11 isoform X4

    4. XM_066310122.1 → XP_066166219.1  myb family transcription factor PHL11 isoform X3

    5. XM_015779922.3 → XP_015635408.1  myb family transcription factor PHL11 isoform X1

      UniProtKB/TrEMBL
      B8ATM6
      Conserved Domains (3) summary
      TIGR01557
      Location:21 → 77
      myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
      PRK11281
      Location:129 → 223
      PRK11281; mechanosensitive channel MscK
      pfam14379
      Location:122 → 168
      Myb_CC_LHEQLE; MYB-CC type transfactor, LHEQLE motif

    6. XM_015779923.3 → XP_015635409.1  myb family transcription factor PHL11 isoform X2

      UniProtKB/TrEMBL
      B8ATM6, B9FCA7
      Conserved Domains (3) summary
      TIGR01557
      Location:21 → 77
      myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
      PRK11281
      Location:114 → 222
      PRK11281; mechanosensitive channel MscK
      pfam14379
      Location:121 → 167
      Myb_CC_LHEQLE; MYB-CC type transfactor, LHEQLE motif
    Nucleotide Protein
    Heading Accession and Version

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