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    LOC4347727 WD-40 repeat-containing protein MSI3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4347727, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4347727
    Gene description
    WD-40 repeat-containing protein MSI3
    Locus tag
    OSNPB_090540600
    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
    Broad expression in flower buds (RPKM 6.5), flowers (RPKM 4.6) and 6 other tissues See more
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    Genomic context

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    See LOC4347727 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (25718523..25722696)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (21276412..21280620)

    Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene GDSL esterase/lipase EXL3 Neighboring gene mediator of RNA polymerase II transcription subunit 4 Neighboring gene G-box-binding factor 1 Neighboring gene la-related protein 1B

    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. 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 histone binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables nucleosome binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    WD-40 repeat-containing protein MSI3; histone-binding protein MSI1 homolog
    Names
    B1274F11.21
    Os09g0540600
    WD domain, G-beta repeat domain-containing protein
    putative WD-40 repeat protein

    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_089043.1 Reference ASM3414082v1 Primary Assembly

      Range
      25718523..25722696
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015756946.3 → XP_015612432.1  histone-binding protein MSI1 homolog isoform X1

      UniProtKB/TrEMBL
      A0A0P0XR44, B8BE58, Q0IZZ1, Q651E0
      Conserved Domains (3) summary
      sd00039
      Location:119 → 160
      7WD40; WD40 repeat [structural motif]
      pfam12265
      Location:17 → 76
      CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
      cl29593
      Location:157 → 387
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. XM_015756947.3 → XP_015612433.1  WD-40 repeat-containing protein MSI3 isoform X2

      UniProtKB/TrEMBL
      B8BE58
      Conserved Domains (3) summary
      sd00039
      Location:119 → 160
      7WD40; WD40 repeat [structural motif]
      pfam12265
      Location:17 → 76
      CAF1C_H4-bd; Histone-binding protein RBBP4 or subunit C of CAF1 complex
      cl29593
      Location:157 → 384
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    Nucleotide Protein
    Heading Accession and Version

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