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    LOC4342103 serine/threonine-protein kinase ATR-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4342103, updated on 6-Jun-2024

    Summary

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    Gene symbol
    LOC4342103
    Gene description
    serine/threonine-protein kinase ATR-like
    Locus tag
    OSNPB_060724700
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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
    P0548E04.6
    Expression
    Broad expression in flowers (RPKM 2.5), leaves before flowering (RPKM 2.4) and 6 other tissues See more
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    Genomic context

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    See LOC4342103 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    102 current IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (30797090..30815874, complement)

    Chromosome 6 - NC_029261.1Genomic Context describing neighboring genes Neighboring gene DDB1- and CUL4-associated factor 8-like Neighboring gene DDB1- and CUL4-associated factor 8-like Neighboring gene serine/arginine-rich splicing factor SR45a Neighboring gene transcription factor bHLH93 Neighboring gene serine/threonine-protein kinase STY46 Neighboring gene thiosulfate sulfurtransferase 16, chloroplastic Neighboring gene NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2-like

    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 protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage checkpoint signaling IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in telomere maintenance 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
    serine/threonine-protein kinase ATR
    Names
    LOC_Os06g50910
    P0535F09.39
    putative AtRAD3
    XP_015643715.1
    XP_015643716.1
    XP_025881977.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001421930.1 → NP_001408859.1  serine/threonine-protein kinase ATR

      Status: VALIDATED

      Source sequence(s)
      AK109634, AP014962
      UniProtKB/Swiss-Prot
      A2YH41, Q5Z987

    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
      30797090..30815874 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015788229.2 → XP_015643715.1  serine/threonine-protein kinase ATR isoform X1

      UniProtKB/Swiss-Prot
      Q5Z987
      Conserved Domains (4) summary
      smart00802
      Location:1112 → 1218
      UME; Domain in UVSB PI-3 kinase, MEI-41 and ESR-1
      cd00892
      Location:2365 → 2640
      PIKKc_ATR; Catalytic domain of Ataxia telangiectasia and Rad3-related proteins
      pfam02259
      Location:1791 → 2167
      FAT; FAT domain
      pfam02260
      Location:2679 → 2710
      FATC; FATC domain

    2. XM_026026192.1 → XP_025881977.1  serine/threonine-protein kinase ATR isoform X2

      UniProtKB/Swiss-Prot
      A2YH41
      Conserved Domains (4) summary
      smart00802
      Location:977 → 1083
      UME; Domain in UVSB PI-3 kinase, MEI-41 and ESR-1
      COG5032
      Location:2070 → 2575
      TEL1; Phosphatidylinositol kinase or protein kinase, PI-3 family [Signal transduction mechanisms]
      cd00892
      Location:2230 → 2505
      PIKKc_ATR; Catalytic domain of Ataxia telangiectasia and Rad3-related proteins
      pfam02259
      Location:1656 → 2032
      FAT; FAT domain

    3. XM_015788230.2 → XP_015643716.1  serine/threonine-protein kinase ATR isoform X3

      UniProtKB/Swiss-Prot
      A2YH41
      Conserved Domains (2) summary
      smart00802
      Location:1112 → 1218
      UME; Domain in UVSB PI-3 kinase, MEI-41 and ESR-1
      pfam02259
      Location:1791 → 2167
      FAT; FAT domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5Z987.1 GenPept UniProtKB/Swiss-Prot:Q5Z987

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