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    Cdk13 cyclin-dependent kinase 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306998, updated on 3-Dec-2024

    Summary

    Official Symbol
    Cdk13provided by RGD
    Official Full Name
    cyclin-dependent kinase 13provided by RGD
    Primary source
    RGD:1311226
    See related
    EnsemblRapid:ENSRNOG00000013620 AllianceGenome:RGD:1311226
    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
    Cdc2l5
    Summary
    Predicted to enable RNA polymerase II CTD heptapeptide repeat kinase activity; cyclin binding activity; and protein kinase binding activity. Predicted to be involved in several processes, including alternative mRNA splicing, via spliceosome; hemopoiesis; and positive regulation of transcription elongation by RNA polymerase II. Predicted to act upstream of or within negative regulation of stem cell differentiation. Predicted to be located in Golgi apparatus; cytosol; and nuclear speck. Predicted to be part of cyclin K-CDK13 complex and cyclin/CDK positive transcription elongation factor complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in congenital heart defects, dysmorphic facial features, and intellectual developmental disorder; hepatocellular carcinoma; intellectual disability; and prostate carcinoma. Orthologous to human CDK13 (cyclin dependent kinase 13). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 250.0), Spleen (RPKM 226.6) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Cdk13 in Genome Data Viewer
    Location:
    17q11
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (51945975..52040218)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (47251145..47344675)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (49833194..49922932)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene RAS like proto-oncogene A Neighboring gene phosphoglycerate mutase 1, pseudogene 5 Neighboring gene M-phase specific PLK1 interacting protein Neighboring gene succinylCoA:glutarate-CoA transferase

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II CTD heptapeptide repeat kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II CTD heptapeptide repeat kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables cyclin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cyclin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in Golgi apparatus 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 cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nuclear cyclin-dependent protein kinase holoenzyme complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    cyclin-dependent kinase 13
    Names
    cell division cycle 2-like 5 (cholinesterase-related cell division controller)
    cell division protein kinase 13
    NP_001258224.2
    NP_001258225.2
    XP_038951649.1
    XP_038951650.1
    XP_038951651.1
    XP_038951652.1
    XP_038951653.1
    XP_063132528.1

    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_001271295.2NP_001258224.2  cyclin-dependent kinase 13 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/TrEMBL
      F1M1X9
      Related
      ENSRNOP00000018431.8, ENSRNOT00000018431.9
      Conserved Domains (1) summary
      cd07864
      Location:697998
      STKc_CDK12; Catalytic domain of the Serine/Threonine Kinase, Cyclin-Dependent protein Kinase 12
    2. NM_001271296.2NP_001258225.2  cyclin-dependent kinase 13 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      JAXUCZ010000017
      Conserved Domains (1) summary
      cd07864
      Location:697998
      STKc_CDK12; Catalytic domain of the Serine/Threonine Kinase, Cyclin-Dependent protein Kinase 12

    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_086035.1 Reference GRCr8

      Range
      51945975..52040218
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039095721.2XP_038951649.1  cyclin-dependent kinase 13 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AEX0
      Related
      ENSRNOP00000091047.1, ENSRNOT00000107948.2
      Conserved Domains (1) summary
      cd07864
      Location:697998
      STKc_CDK12; Catalytic domain of the Serine/Threonine Kinase, Cyclin-Dependent protein Kinase 12
    2. XM_039095722.2XP_038951650.1  cyclin-dependent kinase 13 isoform X2

      Conserved Domains (1) summary
      cd07864
      Location:697998
      STKc_CDK12; Catalytic domain of the Serine/Threonine Kinase, Cyclin-Dependent protein Kinase 12
    3. XM_039095724.2XP_038951652.1  cyclin-dependent kinase 13 isoform X5

      Conserved Domains (1) summary
      cl21453
      Location:697867
      PKc_like; Protein Kinases, catalytic domain
    4. XM_039095723.2XP_038951651.1  cyclin-dependent kinase 13 isoform X4

      Conserved Domains (1) summary
      cl21453
      Location:697862
      PKc_like; Protein Kinases, catalytic domain
    5. XM_039095725.2XP_038951653.1  cyclin-dependent kinase 13 isoform X6

      Conserved Domains (1) summary
      cl21453
      Location:697784
      PKc_like; Protein Kinases, catalytic domain
    6. XM_063276458.1XP_063132528.1  cyclin-dependent kinase 13 isoform X3

      UniProtKB/TrEMBL
      A6K9A4