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    LOC4351240 phototropin-1A-like [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4351240, updated on 3-Dec-2024

    Summary

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    Gene symbol
    LOC4351240
    Gene description
    phototropin-1A-like
    Locus tag
    OSNPB_120101800
    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
    PHOT1A; Osnph1a
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    Genomic context

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    See LOC4351240 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 12 NC_089046.1 (98347..113026)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 12 NC_029267.1 (75273..89965)

    Chromosome 12 - NC_089046.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136354818 Neighboring gene WUSCHEL-related homeobox 3 Neighboring gene enoyl-[acyl-carrier-protein] reductase, mitochondrial Neighboring gene protein TONNEAU 1a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Jantasuriyarat C, et al. Plant Physiol, 2005 May. PMID 15888683, Free PMC Article
    2. 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
    3. 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
    4. 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 ATP 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 protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    phototropin-1A
    Names
    LOC_Os12g01140
    Non-phototropic hypocotyl protein 1A
    nonphototrophic hypocotyl 1a
    NP_001391540.1

    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_001404611.1 → NP_001391540.1  phototropin-1A

      Status: VALIDATED

      Source sequence(s)
      CB639087, CB646407, CB646859, CB649418, CB666364, CB668295, CB675019, CI321073, CI582112
      UniProtKB/Swiss-Prot
      Q2QYY8, Q9ST26
      UniProtKB/TrEMBL
      B8BLR3

    RNA

    1. NR_175847.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      CB639087, CB646407, CB646859, CB649418, CB666364, CB668295, CB675019, CI321073, CI582112

    2. NR_175848.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      CB639087, CB646407, CB646859, CB649418, CB666364, CB668295, CB675019, CI321073, CI582112

    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_089046.1 Reference ASM3414082v1 Primary Assembly

      Range
      98347..113026
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q2QYY8.2 GenPept UniProtKB/Swiss-Prot:Q2QYY8

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