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    LOC4345944 COP9 signalosome complex subunit 6-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4345944, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4345944
    Gene description
    COP9 signalosome complex subunit 6-like
    Locus tag
    OSNPB_080500000
    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
    OJ1118_A06.12
    Expression
    Ubiquitous expression in flower buds (RPKM 19.3), leaves after flowering (RPKM 17.1) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 8
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (24826749..24830063, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (24681224..24684533, complement)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene pentatricopeptide repeat-containing protein At1g80150, mitochondrial Neighboring gene F-box protein At-B Neighboring gene peroxisome biogenesis protein 5 Neighboring gene pre-mRNA-splicing factor CWC25 homolog

    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. CSN6, a subunit of the COP9 signalosome, is involved in early response to iron deficiency in Oryza sativa. Tan S, et al. Sci Rep, 2016 May 3. PMID 27137867, Free PMC Article
    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables metallopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in protein deneddylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of COP9 signalosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    COP9 signalosome complex subunit 6-like
    Names
    COP9 signalosome complex subunit 6a
    Os08g0500000
    putative COP9 complex subunit 6

    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
      24826749..24830063 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015793055.3 → XP_015648541.1  COP9 signalosome complex subunit 6-like

      UniProtKB/Swiss-Prot
      Q0J4P9, Q2A0N7, Q6ZKM2
      UniProtKB/TrEMBL
      B8BC52
      Conserved Domains (1) summary
      cd08063
      Location:27 → 322
      MPN_CSN6; Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6
    Nucleotide Protein
    Heading Accession and Version

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