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    Cry1 cryptochrome 1 (photolyase-like) [ Mus musculus (house mouse) ]

    Gene ID: 12952, updated on 22-Aug-2021

    Summary

    Official Symbol
    Cry1provided by MGI
    Official Full Name
    cryptochrome 1 (photolyase-like)provided by MGI
    Primary source
    MGI:MGI:1270841
    See related
    Ensembl:ENSMUSG00000020038
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Ph; Phll1; AU020726; AU021000
    Summary
    This gene encodes a flavin adenine dinucleotide-binding protein that is a key component of the circadian core oscillator complex, which regulates the circadian clock. This gene is upregulated by Clock/Arntl heterodimers but then represses this upregulation in a feedback loop using Per/Cry heterodimers to interact with Clock/Arntl. Polymorphisms in this gene have been associated with altered sleep patterns. The encoded protein is widely conserved across plants and animals. Loss of this gene results in a shortened circadian cycle in complete darkness. [provided by RefSeq, Feb 2014]
    Expression
    Ubiquitous expression in thymus adult (RPKM 16.0), ovary adult (RPKM 8.5) and 27 other tissues See more
    Orthologs
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    Genomic context

    See Cry1 in Genome Data Viewer
    Location:
    10 C1; 10 41.63 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (84967564..85020918, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (85131700..85185054, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (84594445..84647799, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 263 Neighboring gene four and a half LIM domains 4 Neighboring gene mitochondrial transcription termination factor 2 Neighboring gene proteasome subunit alpha 5, pseudogene Neighboring gene predicted gene, 34712 Neighboring gene predicted gene, 40730

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2)  1 citation
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables E-box binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables FAD binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone deacetylase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables nuclear receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables nuclear receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables phosphatase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables photoreceptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage induced protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in circadian regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in circadian regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in circadian regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within circadian rhythm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within circadian rhythm IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in entrainment of circadian clock by photoperiod IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in entrainment of circadian clock by photoperiod IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in gluconeogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in glucose homeostasis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in lipid storage IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of G protein-coupled receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of circadian rhythm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of glucocorticoid receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of glucocorticoid receptor signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of glucocorticoid secretion IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of gluconeogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription, DNA-templated IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in negative regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription, DNA-templated IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in negative regulation of transcription, DNA-templated IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein ubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within protein-chromophore linkage IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA damage checkpoint IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to glucagon IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to insulin IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in response to light stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within response to stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_007771.3NP_031797.1  cryptochrome-1

      See identical proteins and their annotated locations for NP_031797.1

      Status: VALIDATED

      Source sequence(s)
      BC085499
      Consensus CDS
      CCDS24089.1
      UniProtKB/Swiss-Prot
      P97784
      Related
      ENSMUSP00000020227.10, ENSMUST00000020227.11
      Conserved Domains (3) summary
      COG0415
      Location:6491
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam00875
      Location:5167
      DNA_photolyase; DNA photolyase
      pfam03441
      Location:213486
      FAD_binding_7; FAD binding domain of DNA photolyase

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      84967564..85020918 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011243349.2XP_011241651.1  cryptochrome-1 isoform X2

      Conserved Domains (1) summary
      pfam03441
      Location:129327
      FAD_binding_7; FAD binding domain of DNA photolyase
    2. XM_030244860.1XP_030100720.1  cryptochrome-1 isoform X2

      Conserved Domains (1) summary
      pfam03441
      Location:129327
      FAD_binding_7; FAD binding domain of DNA photolyase
    3. XM_011243348.2XP_011241650.1  cryptochrome-1 isoform X1

      Conserved Domains (2) summary
      pfam03441
      Location:250448
      FAD_binding_7; FAD binding domain of DNA photolyase
      cl30787
      Location:15453
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
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