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    LOC4333806 nuclear transcription factor Y subunit A-9 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4333806, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4333806
    Gene description
    nuclear transcription factor Y subunit A-9
    Locus tag
    OSNPB_030696300
    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
    OsHAP2D
    Expression
    Broad expression in roots before flowering (RPKM 71.2), leaves after flowering (RPKM 18.6) and 5 other tissues See more
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 3 NC_089037.1 (28764017..28768042)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 3 NC_029258.1 (27890344..27894420)

    Chromosome 3 - NC_089037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4333805 Neighboring gene uncharacterized LOC107278081 Neighboring gene probable cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG4 Neighboring gene uncharacterized LOC107276366

    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. Identification, characterization and interaction of HAP family genes in rice. Thirumurugan T, et al. Mol Genet Genomics, 2008 Mar. PMID 18193457
    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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCAAT-binding factor complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    nuclear transcription factor Y subunit A-4; nuclear transcription factor Y subunit A-9
    Names
    CCAAT-binding transcription factor
    HAP2 subunit of HAP complex
    Os03g0696300

    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_089037.1 Reference ASM3414082v1 Primary Assembly

      Range
      28764017..28768042
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015777151.3 → XP_015632637.1  nuclear transcription factor Y subunit A-4 isoform X1

      UniProtKB/TrEMBL
      A0A0P0W2B5, A0A8J8Y6J6, B9FAR1, Q0DPE5, Q10EQ4
      Conserved Domains (1) summary
      smart00521
      Location:162 → 221
      CBF; CCAAT-Binding transcription Factor

    2. XM_015777148.3 → XP_015632634.1  nuclear transcription factor Y subunit A-4 isoform X1

      UniProtKB/TrEMBL
      A0A0P0W2B5, A0A8J8Y6J6, B9FAR1, Q0DPE5, Q10EQ4
      Conserved Domains (1) summary
      smart00521
      Location:162 → 221
      CBF; CCAAT-Binding transcription Factor

    3. XM_015777152.3 → XP_015632638.1  nuclear transcription factor Y subunit A-9 isoform X2

      UniProtKB/TrEMBL
      A0A0P0W2B5
      Conserved Domains (1) summary
      smart00521
      Location:162 → 221
      CBF; CCAAT-Binding transcription Factor

    4. XM_015777149.3 → XP_015632635.1  nuclear transcription factor Y subunit A-4 isoform X1

      UniProtKB/TrEMBL
      A0A0P0W2B5, A0A8J8Y6J6, B9FAR1, Q0DPE5, Q10EQ4
      Conserved Domains (1) summary
      smart00521
      Location:162 → 221
      CBF; CCAAT-Binding transcription Factor
    Nucleotide Protein
    Heading Accession and Version

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