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    LOC4339773 paired amphipathic helix protein Sin3-like 6 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4339773, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4339773
    Gene description
    paired amphipathic helix protein Sin3-like 6
    Locus tag
    OSNPB_050588700
    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 LOC4339773 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 5 NC_089039.1 (29503743..29511101, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 5 NC_029260.1 (29317526..29324905, complement)

    Chromosome 5 - NC_089039.1Genomic Context describing neighboring genes Neighboring gene bidirectional sugar transporter SWEET5-like Neighboring gene uncharacterized LOC136356500 Neighboring gene uncharacterized LOC136356576 Neighboring gene uncharacterized LOC4339774 Neighboring gene AAA-ATPase At3g50940

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    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. 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 transcription corepressor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of histone deacetylase complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    paired amphipathic helix protein Sin3-like 6
    Names
    Os05g0588700

    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_089039.1 Reference ASM3414082v1 Primary Assembly

      Range
      29503743..29511101 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015782278.3 → XP_015637764.1  paired amphipathic helix protein Sin3-like 6 isoform X2

      UniProtKB/TrEMBL
      B9FIS5
      Conserved Domains (4) summary
      COG5602
      Location:85 → 743
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
      pfam02671
      Location:117 → 162
      PAH; Paired amphipathic helix repeat
      pfam08295
      Location:283 → 367
      Sin3_corepress; Sin3 family co-repressor
      pfam16879
      Location:663 → 743
      Sin3a_C; C-terminal domain of Sin3a protein

    2. XM_015782277.3 → XP_015637763.1  paired amphipathic helix protein Sin3-like 6 isoform X1

      UniProtKB/TrEMBL
      A0A0P0WQY0, B9FIS5, Q0DFI3
      Conserved Domains (2) summary
      COG5602
      Location:85 → 751
      Sin3; Histone deacetylase complex, regulatory component SIN3 [Chromatin structure and dynamics]
      pfam08295
      Location:291 → 375
      Sin3_corepress; Sin3 family co-repressor
    Nucleotide Protein
    Heading Accession and Version

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