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    LOC4349271 transcription factor TDR-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4349271, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4349271
    Gene description
    transcription factor TDR-like
    Locus tag
    OSNPB_100544200
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    BHLH004; AtbHLH004; OsJ_32337
    Expression
    Biased expression in milk grains (RPKM 4.5), flower buds (RPKM 0.8) and 1 other tissue See more
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    Genomic context

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    See LOC4349271 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 10 NC_089044.1 (21936981..21939442, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 10 NC_029265.1 (21244716..21247288, complement)

    Chromosome 10 - NC_089044.1Genomic Context describing neighboring genes Neighboring gene glutathione S-transferase F10 Neighboring gene uncharacterized LOC112936614 Neighboring gene transfer RNA alanine (anticodon AGC) Neighboring gene uncharacterized LOC4349273

    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

    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 
    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
    basic helix-loop-helix protein 004
    Names
    Basic helix-loop-helix protein 004
    OSNPB_100544200
    Os10g0544200
    bHLH 004
    bHLH transcription factor bHLH004

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001423093.1 → NP_001410022.1  basic helix-loop-helix protein 004

      Status: VALIDATED

      Source sequence(s)
      AK063669, AP014966

    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_089044.1 Reference ASM3414082v1 Primary Assembly

      Range
      21936981..21939442 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q336V8.1 GenPept UniProtKB/Swiss-Prot:Q336V8

    Gene LinkOut

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