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    LOC4327851 uncharacterized LOC4327851 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327851, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4327851
    Gene description
    uncharacterized LOC4327851
    Locus tag
    OSNPB_010661400
    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 flower buds (RPKM 12.2), leaves before flowering (RPKM 11.1) and 6 other tissues See more
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    Genomic context

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    See LOC4327851 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (27586825..27590571)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (27004246..27008039)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene CASP-like protein 4A3 Neighboring gene uncharacterized LOC136355463 Neighboring gene AMSH-like ubiquitin thioesterase 2 Neighboring gene uncharacterized LOC4327853

    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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in CUT catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in TRAMP-dependent tRNA surveillance pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in U4 snRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in nuclear polyadenylation-dependent rRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in poly(A)-dependent snoRNA 3'-end processing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of cytoplasmic exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of nuclear exosome (RNase complex) IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    uncharacterized protein LOC4327851
    Names
    Os01g0661400
    putative exosome complex component rrp40

    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_089035.1 Reference ASM3414082v1 Primary Assembly

      Range
      27586825..27590571
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015765722.3 → XP_015621208.1  uncharacterized protein LOC4327851

      UniProtKB/TrEMBL
      A0A0P0V6C1, A2WXU6, Q0JKN6
      Conserved Domains (2) summary
      COG1097
      Location:16 → 238
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cd05790
      Location:70 → 155
      S1_Rrp40; Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in ...

    2. XM_015765724.3 → XP_015621210.1  uncharacterized protein LOC4327851

      UniProtKB/TrEMBL
      A0A0P0V6C1, A2WXU6, Q0JKN6
      Conserved Domains (2) summary
      COG1097
      Location:16 → 238
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cd05790
      Location:70 → 155
      S1_Rrp40; Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in ...

    3. XM_015765723.3 → XP_015621209.1  uncharacterized protein LOC4327851

      UniProtKB/TrEMBL
      A0A0P0V6C1, A2WXU6, Q0JKN6
      Conserved Domains (2) summary
      COG1097
      Location:16 → 238
      Rrp4; Exosome complex RNA-binding protein Rrp4, contains S1 and KH domains [Translation, ribosomal structure and biogenesis]
      cd05790
      Location:70 → 155
      S1_Rrp40; Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in ...
    Nucleotide Protein
    Heading Accession and Version

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