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    LOC4325594 protein PAT1 homolog 1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4325594, updated on 16-Jul-2024

    Summary

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    Gene symbol
    LOC4325594
    Gene description
    protein PAT1 homolog 1
    Locus tag
    OSNPB_010769000
    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
    Also known as
    P0665A11.3
    Expression
    Broad expression in roots before flowering (RPKM 142.6), flowers (RPKM 54.8) and 6 other tissues See more
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    Genomic context

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    See LOC4325594 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (33038762..33045118)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (32432973..32439528)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4325592 Neighboring gene uncharacterized LOC4325593 Neighboring gene lipoyl synthase 1, chloroplastic-like Neighboring gene subtilisin-like protease SBT2.2

    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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in P-body assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in P-body IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein PAT1 homolog 1
    Names
    B1143G03.27
    Os01g0769000

    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
      33038762..33045118
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015761316.3 → XP_015616802.1  protein PAT1 homolog 1

      UniProtKB/TrEMBL
      A0A5S6RD65, A2ZY79, Q0JIZ5, Q5ZAQ3
      Conserved Domains (1) summary
      pfam09770
      Location:461 → 610
      PAT1; Topoisomerase II-associated protein PAT1
    Nucleotide Protein
    Heading Accession and Version

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