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    LOC4347694 protein XAP5 CIRCADIAN TIMEKEEPER-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4347694, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4347694
    Gene description
    protein XAP5 CIRCADIAN TIMEKEEPER-like
    Locus tag
    OSNPB_090535300
    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
    XCT; OsJ_30139; P0569E11.5
    Expression
    Ubiquitous expression in roots after flowering (RPKM 21.5), leaves after flowering (RPKM 20.4) and 6 other tissues See more
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    Genomic context

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    See LOC4347694 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 9 NC_089043.1 (25492684..25496026)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 9 NC_029264.1 (21050622..21053990)

    Chromosome 9 - NC_089043.1Genomic Context describing neighboring genes Neighboring gene E3 ubiquitin ligase BIG BROTHER-related Neighboring gene uncharacterized LOC4347693 Neighboring gene proline-rich receptor-like protein kinase PERK2 Neighboring gene probable E3 ubiquitin-protein ligase ATL44

    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. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
    2. 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
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Process Evidence Code Pubs
    involved_in chromatin organization 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 XAP5 CIRCADIAN TIMEKEEPER
    Names
    LOC_Os09g36480
    putative XAP-5 protein

    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_001422928.1 → NP_001409857.1  protein XAP5 CIRCADIAN TIMEKEEPER

      Status: VALIDATED

      Source sequence(s)
      AK071211, CB653059, CI471332
      UniProtKB/Swiss-Prot
      A0A0P0XQ56, B8BDW1, Q69JZ7

    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_089043.1 Reference ASM3414082v1 Primary Assembly

      Range
      25492684..25496026
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q69JZ7.1 GenPept UniProtKB/Swiss-Prot:Q69JZ7

    Gene LinkOut

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