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    cry3a cryptochrome circadian regulator 3a [ Danio rerio (zebrafish) ]

    Gene ID: 573209, updated on 28-Oct-2024

    Summary

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    Official Symbol
    cry3aprovided by ZNC
    Official Full Name
    cryptochrome circadian regulator 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-010426-4
    See related
    Ensembl:ENSDARG00000069074 AllianceGenome:ZFIN:ZDB-GENE-010426-4
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    cry2a; cry1ba; zgc:110521
    Summary
    Predicted to enable DNA binding activity and FAD binding activity. Acts upstream of or within negative regulation of DNA-templated transcription; response to light stimulus; and response to temperature stimulus. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including digestive system; heart; nervous system; otic vesicle; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in delayed sleep phase syndrome. Orthologous to human CRY1 (cryptochrome circadian regulator 1). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    all
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    Genomic context

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    See cry3a in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (21225064..21252659)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (21192973..21220576)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene SPRY domain containing 4 Neighboring gene glutaminase 2a (liver, mitochondrial) Neighboring gene collagen, type II, alpha 1a Neighboring gene inositol 1,4,5-trisphosphate receptor, type 3 Neighboring gene G protein-coupled receptor 37 like 1b Neighboring gene aminolevulinate, delta-, synthase 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Cellular and molecular responses of adult zebrafish after exposure to CuO nanoparticles or ionic copper. Vicario-Parés U, et al. Ecotoxicology, 2018 Jan. PMID 29150731
    2. Clock mechanisms in zebrafish. Cahill GM. Cell Tissue Res, 2002 Jul. PMID 12111534
    3. Unraveling the mechanisms of the vertebrate circadian clock: zebrafish may light the way. Pando MP, et al. Bioessays, 2002 May. PMID 12001265
    4. Therapeutic Nuclear Magnetic Resonance affects the core clock mechanism and associated Hypoxia-inducible factor-1. Thöni V, et al. Chronobiol Int, 2021 Aug. PMID 33847185
    5. Artificial Light at Night (ALAN), an alarm to ovarian physiology: A study of possible chronodisruption on zebrafish (Danio rerio). Khan ZA, et al. Sci Total Environ, 2018 Jul 1. PMID 30045561

    See all (45) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC110521

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables FAD binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in entrainment of circadian clock by photoperiod IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within response to light stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within response to temperature stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    cryptochrome circadian regulator 3a
    Names
    cryptochrome 2a
    cryptochrome circadian clock 1ba
    cryptochrome circadian regulator 1ba

    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_001313822.1 → NP_001300751.1  cryptochrome circadian regulator 3a isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the shorter isoform (1).
      Source sequence(s)
      BX784023, BX927144, EH447304
      UniProtKB/TrEMBL
      A0A8M1P835, E7FCC1, Q503J5
      Related
      ENSDARP00000109829.2, ENSDART00000129210.4
      Conserved Domains (3) summary
      COG0415
      Location:5 → 491
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam00875
      Location:5 → 166
      DNA_photolyase; DNA photolyase
      pfam03441
      Location:213 → 486
      FAD_binding_7; FAD binding domain of DNA photolyase

    2. NM_131791.2 → NP_571866.2  cryptochrome circadian regulator 3a isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region compared to variant 1. The encoded isoform (2) is longer than isoform 1.
      Source sequence(s)
      BX784023, BX927144, EH447304
      UniProtKB/TrEMBL
      A0A8M1P943, B0S7X5
      Related
      ENSDARP00000090995.4, ENSDART00000100222.5
      Conserved Domains (3) summary
      COG0415
      Location:5 → 491
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam00875
      Location:5 → 166
      DNA_photolyase; DNA photolyase
      pfam03441
      Location:213 → 486
      FAD_binding_7; FAD binding domain of DNA photolyase

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007119.7 Reference GRCz11 Primary Assembly

      Range
      21225064..21252659
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005166892.5 → XP_005166949.1  cryptochrome circadian regulator 3a isoform X1

      UniProtKB/TrEMBL
      A0A8M1P943, B0S7X5
      Conserved Domains (3) summary
      COG0415
      Location:5 → 491
      PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]
      pfam00875
      Location:5 → 166
      DNA_photolyase; DNA photolyase
      pfam03441
      Location:213 → 486
      FAD_binding_7; FAD binding domain of DNA photolyase

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394720.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      262084..286344
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394721.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      1..3335
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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