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    LOC9266475 transcription initiation factor TFIID subunit 1-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 9266475, updated on 21-Dec-2023

    Summary

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    Gene symbol
    LOC9266475
    Gene description
    transcription initiation factor TFIID subunit 1-like
    Locus tag
    OSNPB_060645700
    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
    TAF1; TAFII250; OJ1226_A12.6
    Expression
    Ubiquitous expression in roots after flowering (RPKM 15.5), leaves before flowering (RPKM 13.2) and 6 other tissues See more
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    Genomic context

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    See LOC9266475 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (26359663..26374937, complement)

    Chromosome 6 - NC_029261.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4341653 Neighboring gene uncharacterized LOC4341654 Neighboring gene uncharacterized methyltransferase At2g41040, chloroplastic Neighboring gene uncharacterized LOC4341658

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_029261.1 Chromosome 6 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 RNA polymerase II general transcription initiation factor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II general transcription initiation factor binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables TBP-class protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables histone acetyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA polymerase II preinitiation complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of transcription factor TFIID complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    transcription initiation factor TFIID subunit 1
    Names
    LOC_Os06g43790
    Os06g0645800
    Os06g0645901
    P0017B12.32
    putative HAC13 protein

    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_029261.1 Reference IRGSP-1.0 Primary Assembly

      Range
      26359663..26374937 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015787779.2 → XP_015643265.1  transcription initiation factor TFIID subunit 1 isoform X2

      UniProtKB/Swiss-Prot
      Q67W65
      UniProtKB/TrEMBL
      B9FQ70
      Conserved Domains (4) summary
      pfam09247
      Location:29 → 69
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:553 → 1121
      DUF3591; Protein of unknown function (DUF3591)
      pfam15288
      Location:1371 → 1389
      zf-CCHC_6; Zinc knuckle
      cl02556
      Location:1697 → 1808
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    2. XM_015787780.2 → XP_015643266.1  transcription initiation factor TFIID subunit 1 isoform X3

      UniProtKB/TrEMBL
      B9FQ70
      Conserved Domains (4) summary
      smart00213
      Location:637 → 707
      UBQ; Ubiquitin homologues
      pfam09247
      Location:29 → 69
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:554 → 1122
      DUF3591; Protein of unknown function (DUF3591)
      cl02556
      Location:1696 → 1807
      Bromodomain; Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    3. XM_015787778.2 → XP_015643264.1  transcription initiation factor TFIID subunit 1 isoform X1

      UniProtKB/TrEMBL
      B9FQ70
      Conserved Domains (4) summary
      smart00213
      Location:637 → 707
      UBQ; Ubiquitin homologues
      pfam09247
      Location:29 → 69
      TBP-binding; TATA box-binding protein binding
      pfam12157
      Location:554 → 1122
      DUF3591; Protein of unknown function (DUF3591)
      cl02556
      Location:1698 → 1809
      Bromodomain; Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q67W65.1 GenPept UniProtKB/Swiss-Prot:Q67W65

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