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    LOC9271931 transcription factor BHLH3-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9271931, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC9271931
    Gene description
    transcription factor BHLH3-like
    Locus tag
    OSNPB_060724800
    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
    P0548E04.5
    Expression
    Biased expression in flower buds (RPKM 10.9), flowers (RPKM 5.1) and 2 other tissues See more
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    Genomic context

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    See LOC9271931 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (31669413..31671344)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (30799410..30801464)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4342100 Neighboring gene uncharacterized LOC107281437 Neighboring gene serine/arginine-rich splicing factor SR45a Neighboring gene serine/threonine-protein kinase ATR-like Neighboring gene serine/threonine-protein kinase STY46 Neighboring gene thiosulfate sulfurtransferase 16, chloroplastic

    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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    Markers

    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 
    enables sequence-specific DNA binding 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 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    transcription factor BHLH3-like
    Names
    Os06g0724800
    P0535F09.38

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      31669413..31671344
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788231.3 → XP_015643717.1  transcription factor BHLH3-like

      UniProtKB/TrEMBL
      B8B2K0, B9FQY7
      Conserved Domains (2) summary
      cd04873
      Location:252 → 280
      ACT_UUR-ACR-like; ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD
      cl00081
      Location:154 → 207
      bHLH_SF; basic Helix Loop Helix (bHLH) domain superfamily
    Nucleotide Protein
    Heading Accession and Version

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    Research Materials