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    LOC4324065 putative transcription factor bHLH107 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324065, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4324065
    Gene description
    putative transcription factor bHLH107
    Locus tag
    OSNPB_010159800
    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
    Broad expression in roots before flowering (RPKM 12.3), mature seeds (RPKM 2.8) and 6 other tissues See more
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    Genomic context

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    See LOC4324065 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (3137058..3138736)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (3128954..3130668)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene acyl-coenzyme A oxidase 4, peroxisomal Neighboring gene em-like protein Neighboring gene pyruvate decarboxylase 2 Neighboring gene receptor-like protein 6

    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. Genome-wide analysis of basic/helix-loop-helix transcription factor family in rice and Arabidopsis. Li X, et al. Plant Physiol, 2006 Aug. PMID 16896230, Free PMC Article
    2. 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
    3. 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
    4. 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 DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    putative transcription factor bHLH107
    Names
    Os01g0159800

    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
      3137058..3138736
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015767676.3 → XP_015623162.1  putative transcription factor bHLH107

      UniProtKB/TrEMBL
      B8ADE1, B9ESZ6, Q7F7Z2
      Conserved Domains (1) summary
      cl09141
      Location:161 → 226
      ACT; ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme
    Nucleotide Protein
    Heading Accession and Version

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