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    LOC4339892 6-phosphogluconate dehydrogenase, decarboxylating 1-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339892, updated on 10-Oct-2024

    Summary

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    Gene symbol
    LOC4339892
    Gene description
    6-phosphogluconate dehydrogenase, decarboxylating 1-like
    Locus tag
    OSNPB_060111500
    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
    G6PGH1; OsG6PGH1; OsJ_19864
    Expression
    Ubiquitous expression in leaves after flowering (RPKM 393.9), roots after flowering (RPKM 320.9) and 6 other tissues See more
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    Genomic context

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    See LOC4339892 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (799920..802978)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (643610..646721)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene pentatricopeptide repeat-containing protein At5g27270 Neighboring gene extra-large guanine nucleotide-binding protein 3 Neighboring gene putative acyl-activating enzyme 19 Neighboring gene uncharacterized LOC4339894

    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. Molecular cloning and characterization of rice 6-phosphogluconate dehydrogenase gene that is up-regulated by salt stress. Huang J, et al. Mol Biol Rep, 2003 Dec. PMID 14672408
    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
    4. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, 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 NADP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables phosphogluconate dehydrogenase (decarboxylating) activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in D-gluconate catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in pentose-phosphate shunt IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in pentose-phosphate shunt, oxidative branch IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)
    Names
    6-phosphogluconate dehydrogenase, decarboxylating 1
    LOC_Os06g02144
    P0029D06.14-1
    P0029D06.14-2
    cytosolic 6-phosphogluconate dehydrogenase
    putative phosphogluconate dehydrogenase
    NP_001389624.1
    NP_001389626.1

    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_001402695.1 → NP_001389624.1  phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)

      Status: VALIDATED

      Source sequence(s)
      AK065920, AU223121, CI017955
      UniProtKB/Swiss-Prot
      A0A0P0WRR6, Q7FRX8, Q9LI00
      UniProtKB/TrEMBL
      A0A0B4U151

    2. NM_001402697.1 → NP_001389626.1  phosphogluconate dehydrogenase (NADP(+)-dependent, decarboxylating)

      Status: VALIDATED

      Source sequence(s)
      AK065920, CF276644, CI017955, CI598749
      UniProtKB/Swiss-Prot
      A0A0P0WRR6, Q7FRX8, Q9LI00
      UniProtKB/TrEMBL
      A0A0B4U151

    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
      799920..802978
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LI00.1 GenPept UniProtKB/Swiss-Prot:Q9LI00

    Gene LinkOut

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