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    LOC4325688 protein SAR DEFICIENT 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325688, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC4325688
    Gene description
    protein SAR DEFICIENT 1
    Locus tag
    OSNPB_010134700
    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
    Biased expression in leaves after flowering (RPKM 67.5), roots before flowering (RPKM 43.9) and 3 other tissues See more
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    Genomic context

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    See LOC4325688 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 (1902723..1905241)

    Chromosome 1 - NC_029256.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC9268840 Neighboring gene delta(7)-sterol-C5(6)-desaturase Neighboring gene anti-sigma-I factor RsgI6 Neighboring gene anti-sigma-I factor RsgI6

    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 DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables calmodulin binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of salicylic acid biosynthetic process 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
    protein SAR DEFICIENT 1
    Names
    OSJNBa0083M16.31
    Os01g0134700
    calmodulin-binding protein -like

    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
      1902723..1905241
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015769934.2 → XP_015625420.1  protein SAR DEFICIENT 1

      UniProtKB/TrEMBL
      A2WKC8, A2ZNZ0, Q0JQW9, Q943R3
      Conserved Domains (1) summary
      pfam07887
      Location:85 → 373
      Calmodulin_bind; Calmodulin binding protein-like
    Nucleotide Protein
    Heading Accession and Version

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