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    LOC107275738 chaperonin 60 subunit beta 4, chloroplastic [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 107275738, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC107275738
    Gene description
    chaperonin 60 subunit beta 4, chloroplastic
    Locus tag
    OSNPB_040443900
    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
    Biased expression in leaves before flowering (RPKM 136.1), roots after flowering (RPKM 55.5) and 3 other tissues See more
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    Genomic context

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    See LOC107275738 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (22607390..22611620, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (22118296..22122544, complement)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene putative 12-oxophytodienoate reductase 13 Neighboring gene protein BEARSKIN2-like Neighboring gene E3 ubiquitin-protein ligase EL5-like Neighboring gene uncharacterized LOC9268617

    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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ATP-dependent protein folding chaperone IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein refolding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast stroma IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    chaperonin 60 subunit beta 4, chloroplastic
    Names
    Os04g0443900

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      22607390..22611620 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015778408.3 → XP_015633894.1  chaperonin 60 subunit beta 4, chloroplastic

      UniProtKB/TrEMBL
      A0A0P0WAW0, B8BJN0
      Conserved Domains (1) summary
      cl02777
      Location:12 → 570
      chaperonin_like; chaperonin_like superfamily. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The symmetry of type I ...
    Nucleotide Protein
    Heading Accession and Version

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