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    LOC4334492 squalene synthase [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334492, updated on 6-Jun-2024

    Summary

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    Gene symbol
    LOC4334492
    Gene description
    squalene synthase
    Locus tag
    OSNPB_030805100
    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 flowers (RPKM 20.8), roots before flowering (RPKM 19.2) and 6 other tissues See more
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    Genomic context

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    See LOC4334492 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (33605269..33612412)

    Chromosome 3 - NC_029258.1Genomic Context describing neighboring genes Neighboring gene T-complex protein 1 subunit theta Neighboring gene putative UDP-rhamnose:rhamnosyltransferase 1 Neighboring gene DEAD-box ATP-dependent RNA helicase 37-like Neighboring gene serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029258.1 Chromosome 3 Reference IRGSP-1.0 Primary Assembly

    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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    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables farnesyl-diphosphate farnesyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables squalene synthase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in farnesyl diphosphate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in lipid biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    squalene synthase
    Names
    Os03g0805100
    XP_015630544.1

    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_001418847.1 → NP_001405776.1  squalene synthase

      Status: VALIDATED

      Source sequence(s)
      AB007501, AP014959
      UniProtKB/TrEMBL
      B9F6K0, O22105, Q0DMJ9

    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029258.1 Reference IRGSP-1.0 Primary Assembly

      Range
      33605269..33612412
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015775058.2 → XP_015630544.1  squalene synthase

      UniProtKB/TrEMBL
      O22105
      Conserved Domains (1) summary
      cl00210
      Location:31 → 363
      Isoprenoid_Biosyn_C1; Isoprenoid Biosynthesis enzymes, Class 1
    Nucleotide Protein
    Heading Accession and Version

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