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

    Gene ID: 4342103, updated on 10-Oct-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
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 6 NC_089040.1 (31666995..31685768, complement)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 6 NC_029261.1 (30797090..30815874, complement)

    Chromosome 6 - NC_089040.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC4342100 Neighboring gene uncharacterized LOC107281437 Neighboring gene serine/arginine-rich splicing factor SR45a Neighboring gene transcription factor BHLH3-like Neighboring gene serine/threonine-protein kinase STY46 Neighboring gene thiosulfate sulfurtransferase 16, chloroplastic

    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 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
    NP_001408859.1
    XP_025881977.1
    XP_066167288.1

    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
      Q5Z987

    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
      31666995..31685768 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_066311191.1 → XP_066167288.1  serine/threonine-protein kinase ATR isoform X1

      UniProtKB/Swiss-Prot
      Q5Z987

    2. XM_026026192.2 → 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
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5Z987.1 GenPept UniProtKB/Swiss-Prot:Q5Z987

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