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    clocka clock circadian regulator a [ Cyprinus carpio (common carp) ]

    Gene ID: 109044823, updated on 7-Dec-2023

    Summary

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    Gene symbol
    clocka
    Gene description
    clock circadian regulator a
    See related
    Ensembl:ENSCCRG00000003591
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Cyprinus carpio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Cyprininae; Cyprinus
    Also known as
    clock
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    Genomic context

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    See clocka in Genome Data Viewer
    Location:
    chromosome: B20
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    101 current ASM1834038v1 (GCF_018340385.1) B20 NC_056616.1 (13219221..13271396)
    100 previous assembly common carp genome (GCF_000951615.1) 40 NC_031736.1 (8254270..8276654, complement)

    Chromosome B20 - NC_056616.1Genomic Context describing neighboring genes Neighboring gene trans-L-3-hydroxyproline dehydratase Neighboring gene disheveled-associated activator of morphogenesis 1-like Neighboring gene neuromedin-U-like Neighboring gene transmembrane protein 165 Neighboring gene steroid 5 alpha-reductase 3

    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. 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
    2. 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 transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables E-box binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CLOCK-BMAL transcription complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    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
    circadian locomoter output cycles protein kaput

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Cyprinus carpio Annotation Release 101 details...Open this link in a new tab

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

    Reference ASM1834038v1 Primary Assembly

    Genomic

    1. NC_056616.1 Reference ASM1834038v1 Primary Assembly

      Range
      13219221..13271396
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_042746946.1 → XP_042602880.1  circadian locomoter output cycles protein kaput isoform X1

      UniProtKB/TrEMBL
      A0A8C1RTV1, A0A8C2DJ69
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins

    2. XM_042746949.1 → XP_042602883.1  circadian locomoter output cycles protein kaput isoform X2

      UniProtKB/TrEMBL
      A0A8C2DJ69, A0A9Q9XJB7
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins

    3. XM_042746950.1 → XP_042602884.1  circadian locomoter output cycles protein kaput isoform X3

      UniProtKB/TrEMBL
      A0A8C0YGN4, A0A9Q9XJB9
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins

    4. XM_042746951.1 → XP_042602885.1  circadian locomoter output cycles protein kaput isoform X4

      UniProtKB/TrEMBL
      A0A8C0YGN4, A0A9Q9XJQ9
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins

    5. XM_042746948.1 → XP_042602882.1  circadian locomoter output cycles protein kaput isoform X1

      UniProtKB/TrEMBL
      A0A8C1RTV1, A0A8C2DJ69
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins

    6. XM_042746947.1 → XP_042602881.1  circadian locomoter output cycles protein kaput isoform X1

      UniProtKB/TrEMBL
      A0A8C1RTV1, A0A8C2DJ69
      Conserved Domains (3) summary
      cd00130
      Location:109 → 207
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam08447
      Location:277 → 364
      PAS_3; PAS fold
      cd19734
      Location:20 → 80
      bHLH-PAS_CLOCK; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins
    Nucleotide Protein
    Heading Accession and Version

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