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    LOC4327440 KH domain-containing protein SPIN1-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327440, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4327440
    Gene description
    KH domain-containing protein SPIN1-like
    Locus tag
    OSNPB_010818300
    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 14.3), leaves before flowering (RPKM 10.8) and 6 other tissues See more
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    Genomic context

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    See LOC4327440 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (35459550..35462831)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (34852250..34855851)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene protein PIN-LIKES 6 Neighboring gene uncharacterized LOC107275876 Neighboring gene pentatricopeptide repeat-containing protein At3g14730 Neighboring gene WUSCHEL-related homeobox 8-like Neighboring gene probable LRR receptor-like serine/threonine-protein kinase At1g06840

    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 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 SPIN1-like
    Names
    Os01g0818300
    P0454H12.28
    putative QUAKING

    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
      35459550..35462831
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015769726.3 → XP_015625212.1  KH domain-containing protein SPIN1-like

      UniProtKB/TrEMBL
      A0A0N7KDY9, A0A9K3Y804, A2ZZ06, B8ABA8, Q0JI84, Q5QMM5
      Conserved Domains (2) summary
      cd02395
      Location:140 → 260
      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:24 → 69
      STAR_dimer; Homodimerization region of STAR domain protein
    Nucleotide Protein
    Heading Accession and Version

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