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    LOC4343671 pre-mRNA-splicing factor 18 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4343671, updated on 6-Jun-2024

    Summary

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    Gene symbol
    LOC4343671
    Gene description
    pre-mRNA-splicing factor 18
    Locus tag
    OSNPB_070571900
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    OJ1121_A05.19
    Expression
    Ubiquitous expression in leaves after flowering (RPKM 27.2), roots after flowering (RPKM 23.2) and 6 other tissues See more
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    Genomic context

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    See LOC4343671 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 7 NC_029262.1 (23087858..23090916, complement)

    Chromosome 7 - NC_029262.1Genomic Context describing neighboring genes Neighboring gene organic cation/carnitine transporter 7 Neighboring gene protein YABBY 7-like Neighboring gene COMPASS-like H3K4 histone methylase component WDR5B Neighboring gene primary amine oxidase 2 Neighboring gene uncharacterized LOC4343674

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029262.1 Chromosome 7 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

    Process Evidence Code Pubs
    involved_in RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in generation of catalytic spliceosome for second transesterification step IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of U2-type post-spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of U4/U6 x U5 tri-snRNP complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of U5 snRNP IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor 18
    Names
    Os07g0571900
    putative potassium channel regulatory factor

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001424256.1 → NP_001411185.1  pre-mRNA-splicing factor 18

      Status: VALIDATED

      Source sequence(s)
      AK101604, CI430338
      UniProtKB/TrEMBL
      A0A0N7KNQ1, A2YMU9, B9FY09, Q6YTU8

    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_029262.1 Reference IRGSP-1.0 Primary Assembly

      Range
      23087858..23090916 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015791632.2 → XP_015647118.1  pre-mRNA-splicing factor 18

      Conserved Domains (2) summary
      pfam02840
      Location:254 → 391
      Prp18; Prp18 domain
      cl02632
      Location:119 → 162
      PRP4; pre-mRNA processing factor 4 (PRP4) like
    Nucleotide Protein
    Heading Accession and Version

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