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    LOC4339017 probable monofunctional riboflavin biosynthesis protein RIBA 3, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339017, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4339017
    Gene description
    probable monofunctional riboflavin biosynthesis protein RIBA 3, chloroplastic
    Locus tag
    OSNPB_050460600
    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
    RIBA3; OsJ_18816; OJ1281_H05.8
    Expression
    Biased expression in leaves before flowering (RPKM 46.2), roots after flowering (RPKM 26.2) and 3 other tissues See more
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (22739243..22742602, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (22625669..22629126, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene transfer RNA arginine (anticodon CCG) Neighboring gene transfer RNA valine (anticodon AAC) Neighboring gene histone H2B.11-like Neighboring gene uncharacterized LOC4339018 Neighboring gene uncharacterized LOC4339019

    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. 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. The Nucleotide-Dependent Interactome of Rice Heterotrimeric G-Protein α -Subunit. Biswal AK, et al. Proteomics, 2019 May. PMID 30866160
    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

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables 3,4-dihydroxy-2-butanone-4-phosphate synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables GTP cyclohydrolase II activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in riboflavin biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable monofunctional riboflavin biosynthesis protein RIBA 3, chloroplastic
    Names
    GTP cyclohydrolase II/3,4-dihydroxy-2-butanone-4-phosphate synthase-like protein
    NP_001389496.1
    NP_001389497.1

    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_001402567.1 → NP_001389496.1  probable monofunctional riboflavin biosynthesis protein RIBA 3, chloroplastic isoform 1

      Status: VALIDATED

      Source sequence(s)
      AK072931, AU101184, AY224441
      UniProtKB/Swiss-Prot
      A0A0P0WNE0, Q6L506, Q84PC2
      UniProtKB/TrEMBL
      A2Y5G2

    2. NM_001402568.1 → NP_001389497.1  probable monofunctional riboflavin biosynthesis protein RIBA 3, chloroplastic isoform 2

      Status: VALIDATED

      Source sequence(s)
      AK067655, AK072931, AU101184, AY224441
      Conserved Domains (1) summary
      PLN02831
      Location:1 → 384
      PLN02831; Bifunctional GTP cyclohydrolase II/ 3,4-dihydroxy-2-butanone-4-phosphate synthase

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      22739243..22742602 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6L506.1 GenPept UniProtKB/Swiss-Prot:Q6L506

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