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    LOC4341663 homogentisate geranylgeranyltransferase, chloroplastic-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4341663, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4341663
    Gene description
    homogentisate geranylgeranyltransferase, chloroplastic-like
    Locus tag
    OSNPB_060646900
    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
    HGGT; OsHGGT; OJ1226_A12.22
    Expression
    Biased expression in milk grains (RPKM 11.2), mature seeds (RPKM 1.8) and 2 other tissues See more
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    Genomic context

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    See LOC4341663 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (27299328..27303287, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (26435189..26439393, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene homeobox protein knotted-1-like 11 Neighboring gene uncharacterized LOC4341662 Neighboring gene large ribosomal subunit protein bL35c Neighboring gene two-component response regulator ORR25

    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. Metabolic redesign of vitamin E biosynthesis in plants for tocotrienol production and increased antioxidant content. Cahoon EB, et al. Nat Biotechnol, 2003 Sep. PMID 12897790
    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables prenyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    homogentisate geranylgeranyltransferase, chloroplastic
    Names
    LOC_Os06g43880
    OSJNBa0062J02.6
    homogentisic acid geranylgeranyl transferase
    putative homogentisic acid geranylgeranyl transferase
    NP_001408594.1
    XP_066167266.1

    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_001421665.1 → NP_001408594.1  homogentisate geranylgeranyltransferase, chloroplastic

      Status: VALIDATED

      Source sequence(s)
      AK063383, CF307277, CI080891, CI084651, CI651303
      UniProtKB/Swiss-Prot
      Q0DAK7, Q67W53, Q7XB12

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      27299328..27303287 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066311169.1 → XP_066167266.1  homogentisate geranylgeranyltransferase, chloroplastic isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0DAK7.2 GenPept UniProtKB/Swiss-Prot:Q0DAK7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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    Research Materials