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    LOC4335314 histone H1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4335314, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4335314
    Gene description
    histone H1
    Locus tag
    OSNPB_040253000
    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
    Expression
    Ubiquitous expression in leaves before flowering (RPKM 215.5), flower buds (RPKM 199.9) and 6 other tissues See more
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    Genomic context

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    See LOC4335314 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (10188252..10189249)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (9993485..9994501)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136356164 Neighboring gene uncharacterized LOC136356328 Neighboring gene uncharacterized LOC107280732 Neighboring gene uncharacterized LOC107280610

    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 double-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables nucleosomal DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables structural constituent of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromosome condensation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of DNA recombination IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in nucleosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of nucleosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    histone H1
    Names
    Os04g0253000

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      10188252..10189249
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015781730.3 → XP_015637216.1  histone H1

      UniProtKB/TrEMBL
      A2XR29, A3ARP5, B7EMI6, Q01M78, Q7XM53
      Conserved Domains (1) summary
      smart00526
      Location:31 → 97
      H15; Domain in histone families 1 and 5
    Nucleotide Protein
    Heading Accession and Version

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