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    LOC4327774 E3 ubiquitin-protein ligase SINAT5 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4327774, updated on 13-Jul-2024

    Summary

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    Gene symbol
    LOC4327774
    Gene description
    E3 ubiquitin-protein ligase SINAT5
    Locus tag
    OSNPB_010234900
    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
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    Genomic context

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    See LOC4327774 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 1 NC_089035.1 (7461993..7464790, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 1 NC_029256.1 (7450826..7453678, complement)

    Chromosome 1 - NC_089035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4324293 Neighboring gene 25.3 kDa vesicle transport protein SEC22-1 Neighboring gene phosphatidylinositol 4-kinase gamma 4-like Neighboring gene transfer RNA glutamine (anticodon CUG) Neighboring gene uncharacterized LOC4327776

    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
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    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

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase SINAT5
    Names
    Os01g0234900
    P0702F03.27
    putative ubiquitin ligase SINAT5
    seven in absentia protein family domain-containing protein

    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
      7461993..7464790 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015778180.3 → XP_015633666.1  E3 ubiquitin-protein ligase SINAT5

      UniProtKB/TrEMBL
      A0A0P0V0B6, A0A9K3Y6T7, Q0JP96, Q5NAX7
      Conserved Domains (1) summary
      pfam03145
      Location:128 → 327
      Sina; Seven in absentia protein family
    Nucleotide Protein
    Heading Accession and Version

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