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    LOC4341551 AT-rich interactive domain-containing protein 6 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4341551, updated on 12-Jul-2024

    Summary

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    Gene symbol
    LOC4341551
    Gene description
    AT-rich interactive domain-containing protein 6
    Locus tag
    OSNPB_060622300
    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 roots after flowering (RPKM 35.0), leaves before flowering (RPKM 33.4) and 6 other tissues See more
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    Genomic context

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    See LOC4341551 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (25876016..25882262)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (25013585..25019839)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4341550 Neighboring gene uncharacterized LOC136356803 Neighboring gene cell division cycle protein 27 homolog B Neighboring gene bZIP transcription factor 50-like

    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 DNA binding 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
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    AT-rich interactive domain-containing protein 6
    Names
    DNA-binding protein-like
    Os06g0622300
    P0040H10.36-1
    P0040H10.36-2

    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_089040.1 Reference ASM3414082v1 Primary Assembly

      Range
      25876016..25882262
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788495.2 → XP_015643981.1  AT-rich interactive domain-containing protein 6

      UniProtKB/TrEMBL
      A0A0P0WYR5, B8B4P3, Q0DAW2, Q69XV5
      Conserved Domains (3) summary
      cd00298
      Location:380 → 456
      ACD_sHsps_p23-like; This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, ...
      smart00501
      Location:165 → 253
      BRIGHT; ARID (A/T-rich interaction domain) domain
      TIGR00927
      Location:6 → 139
      2A1904; K+-dependent Na+/Ca+ exchanger
    Nucleotide Protein
    Heading Accession and Version

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