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    LOC4343509 transcription factor ILR3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4343509, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4343509
    Gene description
    transcription factor ILR3
    Locus tag
    OSNPB_070543000
    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
    OsMYC1; OJ1729_E01.17-1
    Expression
    Ubiquitous expression in roots after flowering (RPKM 51.0), leaves after flowering (RPKM 47.3) and 6 other tissues See more
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    Genomic context

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    See LOC4343509 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 7 NC_089041.1 (21694901..21697901, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (21466836..21469857, complement)

    Chromosome 7 - NC_089041.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136357445 Neighboring gene mavicyanin Neighboring gene beta-amylase Neighboring gene uncharacterized LOC107281475 Neighboring gene beta-amylase Tri a 17

    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. Functional isolation of novel nuclear proteins showing a variety of subnuclear localizations. Moriguchi K, et al. Plant Cell, 2005 Feb. PMID 15659629, 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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    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 
    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
    Os07g0543000
    bHLH transcription factor
    bHLH-HALZ myc like protein
    putative bHLH 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_089041.1 Reference ASM3414082v1 Primary Assembly

      Range
      21694901..21697901 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015792219.3 → XP_015647705.1  transcription factor ILR3

      UniProtKB/TrEMBL
      B8B796, Q0D5Q4, Q6Z5B8, Q7XXQ5
      Conserved Domains (2) summary
      cd11446
      Location:97 → 172
      bHLH_AtILR3_like; basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein IAA-leucine resistant 3 (ILR3) and similar proteins
      cl11433
      Location:155 → 199
      DivIC; Septum formation initiator
    Nucleotide Protein
    Heading Accession and Version

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