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    LOC4329911 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4329911, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4329911
    Gene description
    4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic-like
    Locus tag
    OSNPB_020603800
    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
    ISPG; OsJ_07430; OJ1669_F01.30
    Expression
    Broad expression in roots after flowering (RPKM 182.5), leaves after flowering (RPKM 143.3) and 6 other tissues See more
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    Genomic context

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    See LOC4329911 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 2 NC_089036.1 (24135849..24141724, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 2 NC_029257.1 (23653299..23659199, complement)

    Chromosome 2 - NC_089036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC112937913 Neighboring gene transcription factor bHLH128 Neighboring gene acetylajmalan esterase-like Neighboring gene GDSL esterase/lipase At5g03980 Neighboring gene uncharacterized LOC4329913

    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. 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

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase activity (ferredoxin) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables iron ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in terpenoid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic
    Names
    1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase
    LOC_Os02g39160
    isoprenoid biosynthesis-like protein
    putative GCPE protein
    NP_001388830.1

    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_001401901.1 → NP_001388830.1  4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic

      Status: VALIDATED

      Source sequence(s)
      AK120769, CI157513, CI595100
      UniProtKB/Swiss-Prot
      A0A0P0VLD4, Q6K8J4, Q84PA7
      UniProtKB/TrEMBL
      B8AF20

    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
      24135849..24141724 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6K8J4.1 GenPept UniProtKB/Swiss-Prot:Q6K8J4

    Gene LinkOut

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