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    LOC4340749 transcription factor bHLH49 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4340749, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4340749
    Gene description
    transcription factor bHLH49
    Locus tag
    OSNPB_060275600
    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
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    Genomic context

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    See LOC4340749 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (9540085..9543982)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (9363939..9368005)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene transfer RNA methionine (anticodon CAU) Neighboring gene histone-lysine N-methyltransferase CLF-like Neighboring gene putative U-box domain-containing protein 42 Neighboring gene amino acid transporter AVT6A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. GRASSIUS: a platform for comparative regulatory genomics across the grasses. Yilmaz A, et al. Plant Physiol, 2009 Jan. PMID 18987217, 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 
    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 bHLH49
    Names
    Os06g0275600
    P0038C05.31-1
    bHLH transcription factor
    putative TA1 protein

    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
      9540085..9543982
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788047.3 → XP_015643533.1  transcription factor bHLH49 isoform X2

      UniProtKB/TrEMBL
      F1DKB4, Q0DCX9, Q5VR96
      Conserved Domains (1) summary
      smart00353
      Location:272 → 321
      HLH; helix loop helix domain

    2. XM_015788048.3 → XP_015643534.1  transcription factor bHLH49 isoform X2

      UniProtKB/TrEMBL
      F1DKB4, Q0DCX9, Q5VR96
      Conserved Domains (1) summary
      smart00353
      Location:272 → 321
      HLH; helix loop helix domain

    3. XM_015788044.3 → XP_015643530.1  transcription factor bHLH49 isoform X1

      UniProtKB/TrEMBL
      F1DKB4
      Conserved Domains (1) summary
      smart00353
      Location:272 → 321
      HLH; helix loop helix domain

    4. XM_015788046.3 → XP_015643532.1  transcription factor bHLH49 isoform X1

      UniProtKB/TrEMBL
      F1DKB4
      Conserved Domains (1) summary
      smart00353
      Location:272 → 321
      HLH; helix loop helix domain
    Nucleotide Protein
    Heading Accession and Version

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