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

Gene ID: 4342103, updated on 1-Aug-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
  • 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
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
    A2YH41, 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
    A2YH41, 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

Gene LinkOut

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