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    LOC4341008 1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4341008, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4341008
    Gene description
    1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic
    Locus tag
    OSNPB_060367100
    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
    BE
    Expression
    Broad expression in leaves before flowering (RPKM 17.8), flower buds (RPKM 10.2) and 5 other tissues See more
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    Genomic context

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    See LOC4341008 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (15521497..15551330)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (15335692..15365532)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136356819 Neighboring gene uncharacterized LOC4341007 Neighboring gene uncharacterized LOC4341009 Neighboring gene mitogen-activated protein kinase 11-like

    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. 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
    2. 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
    3. 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 1,4-alpha-glucan branching enzyme activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables cation binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables hydrolase activity, hydrolyzing O-glycosyl compounds IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in glycogen 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
    1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic
    Names
    OSJNBa0015G09.14
    Os06g0367100
    putative 1,4-alpha-glucan branching enzyme

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      15521497..15551330
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_026026329.2 → XP_025882114.1  1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic isoform X4

      Conserved Domains (1) summary
      cl25948
      Location:1 → 758
      PulA; Pullulanase/glycogen debranching enzyme [Carbohydrate transport and metabolism]

    2. XM_015788862.3 → XP_015644348.1  1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic isoform X1

      Conserved Domains (4) summary
      PLN02960
      Location:1 → 913
      PLN02960; alpha-amylase
      pfam02806
      Location:813 → 908
      Alpha-amylase_C; Alpha amylase, C-terminal all-beta domain
      cl07893
      Location:397 → 794
      AmyAc_family; Alpha amylase catalytic domain family
      cl09101
      Location:128 → 192
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    3. XM_015788864.3 → XP_015644350.1  1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic isoform X3

      Conserved Domains (4) summary
      PLN02960
      Location:1 → 878
      PLN02960; alpha-amylase
      pfam02806
      Location:822 → 873
      Alpha-amylase_C; Alpha amylase, C-terminal all-beta domain
      cl07893
      Location:397 → 794
      AmyAc_family; Alpha amylase catalytic domain family
      cl09101
      Location:128 → 192
      E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

    4. XM_015788863.3 → XP_015644349.1  1,4-alpha-glucan-branching enzyme 3, chloroplastic/amyloplastic isoform X2

      UniProtKB/TrEMBL
      A0A0P0WWY2, Q5VN31
      Conserved Domains (1) summary
      PLN02960
      Location:1 → 903
      PLN02960; alpha-amylase
    Nucleotide Protein
    Heading Accession and Version

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