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    Ccnk cyclin K [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500715, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Ccnkprovided by RGD
    Official Full Name
    cyclin Kprovided by RGD
    Primary source
    RGD:1595690
    See related
    EnsemblRapid:ENSRNOG00000006985 AllianceGenome:RGD:1595690
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable cyclin-dependent protein serine/threonine kinase activator activity; protein kinase binding activity; and protein serine/threonine kinase activity. Predicted to be involved in several processes, including negative regulation by host of viral genome replication; positive regulation of transcription elongation by RNA polymerase II; and transcription by RNA polymerase II. Predicted to act upstream of or within DNA damage response; in utero embryonic development; and negative regulation of stem cell differentiation. Predicted to be located in nucleoplasm. Predicted to be part of cyclin K-CDK12 complex; cyclin K-CDK13 complex; and cyclin/CDK positive transcription elongation factor complex. Predicted to be active in nucleus. Orthologous to human CCNK (cyclin K). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Testes (RPKM 60.1), Spleen (RPKM 47.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ccnk in Genome Data Viewer
    Location:
    6q32
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (132854428..132877604)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (127090115..127113195)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (132090235..132113560)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene BCL11 transcription factor B Neighboring gene uncharacterized LOC103692702 Neighboring gene SET domain containing 3, actin N3(tau)-histidine methyltransferase Neighboring gene uncharacterized LOC120103617 Neighboring gene coiled-coil domain containing 85C Neighboring gene uncharacterized LOC120103618

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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    Related articles in PubMed

    1. Interaction of cyclin-dependent kinase 12/CrkRS with cyclin K1 is required for the phosphorylation of the C-terminal domain of RNA polymerase II. Cheng SW, et al. Mol Cell Biol, 2012 Nov. PMID 22988298, Free PMC Article
    2. Cyclin K inhibits HIV-1 gene expression and replication by interfering with cyclin-dependent kinase 9 (CDK9)-cyclin T1 interaction in Nef-dependent manner. Khan SZ, et al. J Biol Chem, 2011 Jul 1. PMID 21555514, Free PMC Article
    3. The Cyclin K/Cdk12 complex maintains genomic stability via regulation of expression of DNA damage response genes. Blazek D, et al. Genes Dev, 2011 Oct 15. PMID 22012619, Free PMC Article
    4. Human cyclin K, a novel RNA polymerase II-associated cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. Edwards MC, et al. Mol Cell Biol, 1998 Jul. PMID 9632813, Free PMC Article
    5. Cyclin K-containing kinase complexes maintain self-renewal in murine embryonic stem cells. Dai Q, et al. J Biol Chem, 2012 Jul 20. PMID 22547058, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA polymerase II CTD heptapeptide repeat kinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cyclin-dependent protein serine/threonine kinase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cyclin-dependent protein serine/threonine kinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation by host of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription, elongation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription elongation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of cyclin K-CDK12 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of cyclin K-CDK13 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of cyclin/CDK positive transcription elongation factor complex IBA
    Inferred from Biological aspect of Ancestor
    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
    		  

    General protein information

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    Preferred Names
    cyclin-K

    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_001109672.1 → NP_001103142.1  cyclin-K

      See identical proteins and their annotated locations for NP_001103142.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129121
      UniProtKB/TrEMBL
      A1L1L5, F7EZL5
      Conserved Domains (2) summary
      cd20530
      Location:40 → 154
      CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins
      cd20531
      Location:158 → 258
      CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins

    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
      132854428..132877604
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240549.5 → XP_006240611.1  cyclin-K isoform X1

      See identical proteins and their annotated locations for XP_006240611.1

      UniProtKB/TrEMBL
      A1L1L5, F7EZL5
      Conserved Domains (2) summary
      cd20530
      Location:40 → 154
      CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins
      cd20531
      Location:158 → 258
      CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins

    2. XM_063262339.1 → XP_063118409.1  cyclin-K isoform X1

      UniProtKB/TrEMBL
      A1L1L5

    3. XM_063262340.1 → XP_063118410.1  cyclin-K isoform X1

      UniProtKB/TrEMBL
      A1L1L5
      Related
      ENSRNOP00000074580.1, ENSRNOT00000083208.3

    4. XM_063262341.1 → XP_063118411.1  cyclin-K isoform X1

      UniProtKB/TrEMBL
      A1L1L5

    5. XM_039112762.2 → XP_038968690.1  cyclin-K isoform X1

      UniProtKB/TrEMBL
      A1L1L5, F7EZL5
      Conserved Domains (2) summary
      cd20530
      Location:40 → 154
      CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins
      cd20531
      Location:158 → 258
      CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins

    6. XM_006240551.5 → XP_006240613.1  cyclin-K isoform X1

      See identical proteins and their annotated locations for XP_006240613.1

      UniProtKB/TrEMBL
      A1L1L5, F7EZL5
      Conserved Domains (2) summary
      cd20530
      Location:40 → 154
      CYCLIN_CCNK_rpt1; first cyclin box found in cyclin-K (CCNK) and similar proteins
      cd20531
      Location:158 → 258
      CYCLIN_CCNK_rpt2; second cyclin box found in cyclin-K (CCNK) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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