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    LOC4344820 helicase-like transcription factor CHR28 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4344820, updated on 17-Jul-2024

    Summary

    Gene symbol
    LOC4344820
    Gene description
    helicase-like transcription factor CHR28
    Locus tag
    OSNPB_080180300
    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 19.1), roots after flowering (RPKM 18.4) and 6 other tissues See more
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    Genomic context

    Location:
    chromosome: 8
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 8 NC_089042.1 (4750303..4758101)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 8 NC_029263.1 (4700662..4708413)

    Chromosome 8 - NC_089042.1Genomic Context describing neighboring genes Neighboring gene mRNA cap guanine-N7 methyltransferase 1-like Neighboring gene histone-lysine N-methyltransferase ATXR3 Neighboring gene increased rDNA silencing protein 4 Neighboring gene zinc finger BED domain-containing protein RICESLEEPER 2-like

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    PubMed 
    enables ATP-dependent chromatin remodeler activity IEA
    Inferred from Electronic Annotation
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    PubMed 

    General protein information

    Preferred Names
    helicase-like transcription factor CHR28
    Names
    Os08g0180300
    P0455A11.14
    putative EDA16
    putative SNF2 domain-containing protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_089042.1 Reference ASM3414082v1 Primary Assembly

      Range
      4750303..4758101
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015794869.3XP_015650355.1  helicase-like transcription factor CHR28

      UniProtKB/TrEMBL
      B8BBD4, B9FZD6, Q6Z9U5
      Conserved Domains (3) summary
      COG0553
      Location:2591029
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd18008
      Location:280639
      DEXDc_SHPRH-like; DEXH-box helicase domain of SHPRH-like proteins
      cl17238
      Location:754804
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain