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    LOC4331698 probable RNA helicase SDE3 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4331698, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4331698
    Gene description
    probable RNA helicase SDE3
    Locus tag
    OSNPB_030160400
    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 flowers (RPKM 11.3), flower buds (RPKM 9.5) and 6 other tissues See more
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (3225141..3229348, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (3215847..3220196, complement)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4331697 Neighboring gene uncharacterized LOC9266275 Neighboring gene type I inositol polyphosphate 5-phosphatase 4 Neighboring gene uncharacterized LOC4331700

    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables 5'-3' RNA helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P granule IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    probable RNA helicase SDE3
    Names
    Os03g0160400

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      3225141..3229348 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015772279.3 → XP_015627765.1  probable RNA helicase SDE3

      UniProtKB/TrEMBL
      A0A8J8XCL9, A2XCS4, A3AEC5, Q0DUY7, Q10RG1
      Conserved Domains (2) summary
      cd18808
      Location:621 → 810
      SF1_C_Upf1; C-terminal helicase domain of Upf1-like family helicases
      cd18038
      Location:396 → 620
      DEXXQc_Helz-like; DEXXQ/H-box helicase domain of Helz-like helicase
    Nucleotide Protein
    Heading Accession and Version

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