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    LOC4328147 3-isopropylmalate dehydratase large subunit, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4328147, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4328147
    Gene description
    3-isopropylmalate dehydratase large subunit, chloroplastic
    Locus tag
    OSNPB_020125100
    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
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 83.4), roots after flowering (RPKM 69.1) and 6 other tissues See more
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    Genomic context

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    See LOC4328147 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (1311802..1316778, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (1304864..1309849, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112937877 Neighboring gene protein LPA2 Neighboring gene AT-hook motif nuclear-localized protein 7 Neighboring gene bax inhibitor 1-like

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

    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-isopropylmalate dehydratase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables 4 iron, 4 sulfur cluster binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in amino acid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    3-isopropylmalate dehydratase large subunit, chloroplastic
    Names
    Os02g0125100
    P0575F10.36
    putative 3-isopropylmalate dehydratase large subunit

    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_089036.1 Reference ASM3414082v1 Primary Assembly

      Range
      1311802..1316778 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015770212.3 → XP_015625698.1  3-isopropylmalate dehydratase large subunit, chloroplastic

      UniProtKB/TrEMBL
      B8AGY8, B9F279, Q6Z702
      Conserved Domains (2) summary
      cd01583
      Location:100 → 506
      IPMI; 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate
      PRK09169
      Location:14 → 90
      PRK09169; hypothetical protein; Validated
    Nucleotide Protein
    Heading Accession and Version

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