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    LOC4323892 farnesyl pyrophosphate synthase [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4323892, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4323892
    Gene description
    farnesyl pyrophosphate synthase
    Locus tag
    OSNPB_010695300
    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
    Expression
    Broad expression in roots after flowering (RPKM 37.2), leaves after flowering (RPKM 26.2) and 6 other tissues See more
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    Genomic context

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    See LOC4323892 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (29340219..29344787, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (28752067..28755580, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene phosphoethanolamine N-methyltransferase Neighboring gene glycosyltransferase BC10-like Neighboring gene putative D-cysteine desulfhydrase 2, mitochondrial Neighboring gene ABC transporter B family member 4 Neighboring gene ABC transporter B family member 11 Neighboring gene uncharacterized LOC136357334

    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. 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

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables dimethylallyltranstransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables geranyltranstransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in farnesyl diphosphate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    farnesyl pyrophosphate synthase
    Names
    Os01g0695300
    P0431H09.30
    putative farnesyl-pyrophosphate synthetase fps2
    NP_001411244.1
    XP_015621771.1
    XP_015621772.1
    XP_025876026.1
    XP_066168149.1
    XP_066168481.1

    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_001424315.1 → NP_001411244.1  farnesyl pyrophosphate synthase

      Status: VALIDATED

      Source sequence(s)
      AK099451, CI635073, CI659538, EE590596
      UniProtKB/TrEMBL
      B8A815

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      29340219..29344787 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066312052.1 → XP_066168149.1  farnesyl pyrophosphate synthase isoform X2

    2. XM_026020241.2 → XP_025876026.1  farnesyl pyrophosphate synthase isoform X1

      UniProtKB/TrEMBL
      B8A815
      Conserved Domains (1) summary
      pfam00348
      Location:44 → 305
      polyprenyl_synt; Polyprenyl synthetase

    3. XM_015766285.3 → XP_015621771.1  farnesyl pyrophosphate synthase isoform X3

      Conserved Domains (1) summary
      pfam00348
      Location:3 → 219
      polyprenyl_synt; Polyprenyl synthetase

    4. XM_015766286.3 → XP_015621772.1  farnesyl pyrophosphate synthase isoform X2

      UniProtKB/TrEMBL
      A0A0P0V6Z7, B9EYZ0, Q5N9P6
      Conserved Domains (1) summary
      pfam00348
      Location:3 → 265
      polyprenyl_synt; Polyprenyl synthetase

    5. XM_066312384.1 → XP_066168481.1  farnesyl pyrophosphate synthase isoform X3

    Nucleotide Protein
    Heading Accession and Version

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