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    LOC4324889 KH domain-containing protein At1g09660/At1g09670 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4324889, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4324889
    Gene description
    KH domain-containing protein At1g09660/At1g09670
    Locus tag
    OSNPB_010886300
    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 leaves before flowering (RPKM 34.0), leaves after flowering (RPKM 31.7) and 6 other tissues See more
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    Genomic context

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    See LOC4324889 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (38509109..38513471)

    Chromosome 1 - NC_029256.1Genomic Context describing neighboring genes Neighboring gene transfer RNA isoleucine (anticodon UAU) Neighboring gene MADS-box transcription factor 21-like Neighboring gene protein TRIGALACTOSYLDIACYLGLYCEROL 5, chloroplastic Neighboring gene CLP protease regulatory subunit CLPX1, mitochondrial

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029256.1 Chromosome 1 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 mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of mRNA splicing, via spliceosome 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
    KH domain-containing protein At1g09660/At1g09670
    Names
    Os01g0886300
    P0408G07.28-1
    P0434C04.7-1

    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_029256.1 Reference IRGSP-1.0 Primary Assembly

      Range
      38509109..38513471
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015765695.2 → XP_015621181.1  KH domain-containing protein At1g09660/At1g09670

      UniProtKB/TrEMBL
      A2WXQ7, A3A0B7, Q0JH35, Q5N8G9
      Conserved Domains (2) summary
      cd02395
      Location:143 → 263
      SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
      pfam16544
      Location:38 → 81
      STAR_dimer; Homodimerization region of STAR domain protein
    Nucleotide Protein
    Heading Accession and Version

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