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    LOC4336008 cryptochrome-1 [ Oryza sativa Japonica Group (Japanese rice) ]

    Gene ID: 4336008, updated on 17-Jul-2024

    Summary

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    Gene symbol
    LOC4336008
    Gene description
    cryptochrome-1
    Locus tag
    OSNPB_040452100
    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
    Also known as
    OsCRY2; OsCRY1b
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    Genomic context

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    See LOC4336008 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_06 current ASM3414082v1 (GCF_034140825.1) 4 NC_089038.1 (23043321..23048501)
    102 previous assembly IRGSP-1.0 (GCF_001433935.1) 4 NC_029259.1 (22549877..22555039)

    Chromosome 4 - NC_089038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC136356103 Neighboring gene probable protein phosphatase 2C 41 Neighboring gene uncharacterized LOC107277288 Neighboring gene ubiquitin carboxyl-terminal hydrolase 4

    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. Involvement of rice cryptochromes in de-etiolation responses and flowering. Hirose F, et al. Plant Cell Physiol, 2006 Jul. PMID 16760221
    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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables FAD binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables blue light photoreceptor activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables deoxyribodipyrimidine photo-lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in blue light signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in circadian regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in entrainment of circadian clock by photoperiod 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 

    General protein information

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    Preferred Names
    cryptochrome-1
    Names
    Os04g0452100
    cryptochrome 1b

    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_089038.1 Reference ASM3414082v1 Primary Assembly

      Range
      23043321..23048501
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_015781119.2 → XP_015636605.1  cryptochrome-1 isoform X2

      UniProtKB/TrEMBL
      B8AUF2, Q0JCS3, Q948J4
      Conserved Domains (2) summary
      cl30787
      Location:21 → 497
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam12546
      Location:525 → 646
      Cryptochrome_C; Blue/Ultraviolet sensing protein C terminal

    2. XM_015781118.3 → XP_015636604.1  cryptochrome-1 isoform X1

      UniProtKB/TrEMBL
      Q948J4
      Conserved Domains (2) summary
      TIGR02766
      Location:21 → 497
      crypt_chrom_pln; cryptochrome, plant family
      pfam12546
      Location:525 → 646
      Cryptochrome_C; Blue/Ultraviolet sensing protein C terminal

    3. XM_015781120.3 → XP_015636606.1  cryptochrome-1 isoform X2

      UniProtKB/TrEMBL
      B8AUF2, Q0JCS3, Q948J4
      Conserved Domains (2) summary
      cl30787
      Location:21 → 497
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam12546
      Location:525 → 646
      Cryptochrome_C; Blue/Ultraviolet sensing protein C terminal
    Nucleotide Protein
    Heading Accession and Version

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