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    LOC4345965 glycerophosphodiester phosphodiesterase GDPDL3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4345965, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4345965
    Gene description
    glycerophosphodiester phosphodiesterase GDPDL3
    Locus tag
    OSNPB_080503200
    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
    Also known as
    OJ1506_F01.22
    Expression
    Ubiquitous expression in roots after flowering (RPKM 63.2), leaves after flowering (RPKM 47.1) and 6 other tissues See more
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    Genomic context

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    See LOC4345965 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (25011526..25017740)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (24865944..24872157)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4345963 Neighboring gene uncharacterized LOC107276284 Neighboring gene uncharacterized LOC4345964 Neighboring gene tonoplast dicarboxylate transporter Neighboring gene uncharacterized LOC112939876 Neighboring gene beta-(1,2)-xylosyltransferase

    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 glycerophosphodiester phosphodiesterase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    glycerophosphodiester phosphodiesterase GDPDL3
    Names
    Os08g0503200
    putative glycerophosphoryl diester phosphodiesterase 2

    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      25011526..25017740
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794764.3 → XP_015650250.1  glycerophosphodiester phosphodiesterase GDPDL3 isoform X1

      Conserved Domains (3) summary
      cd08603
      Location:54 → 352
      GDPD_SHV3_repeat_1; Glycerophosphodiester phosphodiesterase domain repeat 1 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
      cd08604
      Location:370 → 674
      GDPD_SHV3_repeat_2; Glycerophosphodiester phosphodiesterase domain repeat 2 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
      pfam03009
      Location:375 → 668
      GDPD; Glycerophosphoryl diester phosphodiesterase family

    2. XM_015794765.2 → XP_015650251.1  glycerophosphodiester phosphodiesterase GDPDL3 isoform X2

      UniProtKB/TrEMBL
      A0A0P0XHS8, B8BC94, B9G1P2, Q6ZFH9
      Conserved Domains (2) summary
      cd08603
      Location:54 → 352
      GDPD_SHV3_repeat_1; Glycerophosphodiester phosphodiesterase domain repeat 1 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
      cd08604
      Location:370 → 674
      GDPD_SHV3_repeat_2; Glycerophosphodiester phosphodiesterase domain repeat 2 of glycerophosphodiester phosphodiesterase-like protein SHV3 and SHV3-like proteins
    Nucleotide Protein
    Heading Accession and Version

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