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    LOC4345232 phosphatidylinositol 3-kinase, root isoform [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4345232, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4345232
    Gene description
    phosphatidylinositol 3-kinase, root isoform
    Locus tag
    OSNPB_080307400
    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
    Expression
    Ubiquitous expression in roots after flowering (RPKM 18.4), leaves before flowering (RPKM 15.4) and 6 other tissues See more
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    Genomic context

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    See LOC4345232 in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (12929121..12949161, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (12854430..12874496, complement)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136351365 Neighboring gene pentatricopeptide repeat-containing protein At5g65560 Neighboring gene uncharacterized LOC9268934 Neighboring gene uncharacterized LOC136351518

    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 1-phosphatidylinositol-3-kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in autophagosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in autophagy of peroxisome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in phosphatidylinositol-3-phosphate biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in phosphatidylinositol-mediated signaling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in peroxisome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in phagophore assembly site IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of phosphatidylinositol 3-kinase complex, class III, type I IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of phosphatidylinositol 3-kinase complex, class III, type II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    phosphatidylinositol 3-kinase, root isoform
    Names
    Os08g0307400
    Os08g0307540

    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
      12929121..12949161 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794797.3 → XP_015650283.1  phosphatidylinositol 3-kinase, root isoform isoform X2

      UniProtKB/TrEMBL
      B9G085
      Conserved Domains (3) summary
      cd08397
      Location:24 → 191
      C2_PI3K_class_III; C2 domain present in class III phosphatidylinositol 3-kinases (PI3Ks)
      cd00870
      Location:290 → 448
      PI3Ka_III; Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III ...
      cd00896
      Location:480 → 775
      PI3Kc_III; Catalytic domain of Class III Phosphoinositide 3-kinase

    2. XM_015794796.3 → XP_015650282.1  phosphatidylinositol 3-kinase, root isoform isoform X1

      UniProtKB/TrEMBL
      B9G085, Q0J6J5, Q6UUD9
      Conserved Domains (3) summary
      cd08397
      Location:24 → 191
      C2_PI3K_class_III; C2 domain present in class III phosphatidylinositol 3-kinases (PI3Ks)
      cd00870
      Location:290 → 448
      PI3Ka_III; Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III ...
      cd00896
      Location:480 → 824
      PI3Kc_III; Catalytic domain of Class III Phosphoinositide 3-kinase

    3. XM_066303545.1 → XP_066159642.1  phosphatidylinositol 3-kinase, root isoform isoform X1

    4. XM_066303544.1 → XP_066159641.1  phosphatidylinositol 3-kinase, root isoform isoform X1

    5. XM_015794795.3 → XP_015650281.1  phosphatidylinositol 3-kinase, root isoform isoform X1

      UniProtKB/TrEMBL
      B9G085, Q0J6J5, Q6UUD9
      Conserved Domains (3) summary
      cd08397
      Location:24 → 191
      C2_PI3K_class_III; C2 domain present in class III phosphatidylinositol 3-kinases (PI3Ks)
      cd00870
      Location:290 → 448
      PI3Ka_III; Phosphoinositide 3-kinase (PI3K) class III, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, PI3Ks class III ...
      cd00896
      Location:480 → 824
      PI3Kc_III; Catalytic domain of Class III Phosphoinositide 3-kinase

    RNA

    1. XR_003243802.2 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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