U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Cipc CLOCK-interacting pacemaker [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314330, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Cipcprovided by RGD
    Official Full Name
    CLOCK-interacting pacemakerprovided by RGD
    Primary source
    RGD:1309492
    See related
    EnsemblRapid:ENSRNOG00000011111 AllianceGenome:RGD:1309492
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1309492
    Summary
    Predicted to be involved in negative regulation of DNA-templated transcription and negative regulation of circadian rhythm. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human CIPC (CLOCK interacting pacemaker). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 113.8), Brain (RPKM 98.1) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Cipc in Genome Data Viewer
    Location:
    6q31
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (112325980..112344692)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (106595011..106613732)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (110968014..110990912)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479454 Neighboring gene uncharacterized LOC102555554 Neighboring gene non-histone chromosomal protein HMG-17 pseudogene Neighboring gene transfer RNA glycine (anticodon ACC) Neighboring gene zinc finger DHHC-type palmitoyltransferase 22 Neighboring gene transmembrane protein 63c

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Roles of CLOCK phosphorylation in suppression of E-box-dependent transcription. Yoshitane H, et al. Mol Cell Biol, 2009 Jul. PMID 19414601, Free PMC Article
    2. CIPC is a mammalian circadian clock protein without invertebrate homologues. Zhao WN, et al. Nat Cell Biol, 2007 Mar. PMID 17310242
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of circadian rhythm ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    CLOCK-interacting pacemaker
    Names
    CLOCK-interacting protein, circadian

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001108044.2 → NP_001101514.2  CLOCK-interacting pacemaker

      See identical proteins and their annotated locations for NP_001101514.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A8I5ZWM8, A0A8I6A767, A6JE72
      Related
      ENSRNOP00000087410.1, ENSRNOT00000116697.2
      Conserved Domains (1) summary
      pfam15800
      Location:52 → 388
      CiPC; Clock interacting protein circadian

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      112325980..112344692
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240377.4 → XP_006240439.1  CLOCK-interacting pacemaker isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZWM8, A0A8I6B4P9
      Related
      ENSRNOP00000096737.1, ENSRNOT00000114853.2
      Conserved Domains (1) summary
      pfam15800
      Location:71 → 407
      CiPC; Clock interacting protein circadian

    2. XM_017594156.3 → XP_017449645.1  CLOCK-interacting pacemaker isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZWM8, A0A8I6A767, A6JE72
      Conserved Domains (1) summary
      pfam15800
      Location:52 → 388
      CiPC; Clock interacting protein circadian

    3. XM_006240378.5 → XP_006240440.1  CLOCK-interacting pacemaker isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZWM8, A0A8I6A3A2, D4A489
      Related
      ENSRNOP00000085137.1, ENSRNOT00000118824.2
      Conserved Domains (1) summary
      pfam15800
      Location:61 → 397
      CiPC; Clock interacting protein circadian
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools