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    LOC4344627 transcription factor ILR3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344627, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4344627
    Gene description
    transcription factor ILR3
    Locus tag
    OSNPB_080138500
    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
    OJ1119_D01.9
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    Genomic context

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    See LOC4344627 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (2161237..2163799, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (2148910..2151574, complement)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene mavicyanin Neighboring gene basic blue protein Neighboring gene pentatricopeptide repeat-containing protein At5g50390, chloroplastic Neighboring gene protein VASCULATURE COMPLEXITY AND CONNECTIVITY-like Neighboring gene calcium/calmodulin-regulated receptor-like kinase 1

    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. A network of rice genes associated with stress response and seed development. Cooper B, et al. Proc Natl Acad Sci U S A, 2003 Apr 15. PMID 12684538, Free PMC Article
    2. GRASSIUS: a platform for comparative regulatory genomics across the grasses. Yilmaz A, et al. Plant Physiol, 2009 Jan. PMID 18987217, Free PMC Article
    3. 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
    4. 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
    5. 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 intracellular iron ion homeostasis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    transcription factor ILR3
    Names
    Os08g0138500
    bHLH transcription factor
    helix-loop-helix-like 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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      2161237..2163799 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794324.3 → XP_015649810.1  transcription factor ILR3

      UniProtKB/TrEMBL
      A0A0P0XBI7, A3BPH0, Q6ZKI8
      Conserved Domains (3) summary
      cd11446
      Location:87 → 162
      bHLH_AtILR3_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein IAA-leucine resistant 3 (ILR3) and similar proteins
      cl21462
      Location:147 → 179
      bZIP; Basic leucine zipper (bZIP) domain of bZIP transcription factors: a DNA-binding and dimerization domain
      cl28929
      Location:139 → 238
      VirB10_like; VirB10 and similar proteins form part of core complex in Type IV secretion system (T4SS)
    Nucleotide Protein
    Heading Accession and Version

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