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    LOC4334928 SWI/SNF complex subunit SWI3D [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4334928, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4334928
    Gene description
    SWI/SNF complex subunit SWI3D
    Locus tag
    OSNPB_040110300
    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 9.2), leaves after flowering (RPKM 6.4) and 6 other tissues See more
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    Genomic context

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    See LOC4334928 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (602287..608879)

    Chromosome 4 - NC_029259.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4334926 Neighboring gene uncharacterized LOC4334927 Neighboring gene probable carbohydrate esterase At4g34215 Neighboring gene pentatricopeptide repeat-containing protein At3g29230

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029259.1 Chromosome 4 Reference IRGSP-1.0 Primary Assembly

    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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    SWI/SNF complex subunit SWI3D
    Names
    Os04g0110300

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryza sativa Japonica Group Annotation Release 102 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference IRGSP-1.0 Primary Assembly

    Genomic

    1. NC_029259.1 Reference IRGSP-1.0 Primary Assembly

      Range
      602287..608879
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777983.2 → XP_015633469.1  SWI/SNF complex subunit SWI3D isoform X1

      UniProtKB/TrEMBL
      A0A0P0W607, B8AU98, B9FD22, Q25AD5, Q7XSW0
      Conserved Domains (2) summary
      COG5259
      Location:108 → 386
      RSC8; RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
      pfam16495
      Location:787 → 857
      SWIRM-assoc_1; SWIRM-associated region 1

    2. XM_015777985.2 → XP_015633471.1  SWI/SNF complex subunit SWI3D isoform X2

      UniProtKB/TrEMBL
      B8AU98, Q25AD5
      Conserved Domains (3) summary
      cd02336
      Location:245 → 289
      ZZ_RSC8; Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and ...
      pfam04433
      Location:110 → 195
      SWIRM; SWIRM domain
      pfam16495
      Location:757 → 831
      SWIRM-assoc_1; SWIRM-associated region 1
    Nucleotide Protein
    Heading Accession and Version

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