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    Cdkl3 cyclin-dependent kinase-like 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 60396, updated on 9-Dec-2024

    Summary

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    Symbol
    Cdkl3provided by RGD
    Full Name
    cyclin-dependent kinase-like 3provided by RGD
    Primary source
    RGD:619874
    See related
    EnsemblRapid:ENSRNOG00000059485 AllianceGenome:RGD:619874
    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
    Nkiatre; Nkiatreb
    Summary
    Predicted to enable protein serine/threonine kinase activity. Acts upstream of or within dendrite extension; negative regulation of axon extension; and positive regulation of dendrite morphogenesis. Located in cytoplasm and nucleus. Orthologous to human CDKL3 (cyclin dependent kinase like 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 93.4), Brain (RPKM 20.5) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cdkl3 in Genome Data Viewer
    Location:
    10q22
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (36755413..36850197)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (36263212..36349268)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (37458397..37510345)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA70 Neighboring gene CDKN2A interacting protein N-terminal like Neighboring gene ubiquitin-conjugating enzyme E2B Neighboring gene large ribosomal subunit protein eL21-like Neighboring gene protein phosphatase 2 catalytic subunit alpha Neighboring gene protein FAM162A-like Neighboring gene S-phase kinase-associated protein 1

    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
    • 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. NKIATRE is a novel conserved cdc2-related kinase. Haq R, et al. Genomics, 2001 Jan 15. PMID 11161806
    2. Non-syndromic mild mental retardation candidate gene CDKL3 regulates neuronal morphogenesis. Liu Z, et al. Neurobiol Dis, 2010 Sep. PMID 20347982
    3. Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Gibbs RA, et al. Nature, 2004 Apr 1. PMID 15057822
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. 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

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cyclin-dependent protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine/threonine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in dendrite extension IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within dendrite extension IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within dendrite extension ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of axon extension IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within negative regulation of axon extension IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of axon extension ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of dendrite morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of dendrite morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of dendrite morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    cyclin-dependent kinase-like 3
    Names
    serine/threonine kinase NKIATRE beta
    serine/threonine protein kinase NKIATRE
    NP_068540.1
    XP_008772105.1
    XP_008772106.1
    XP_008772107.1
    XP_008772108.1
    XP_008772111.1
    XP_017458018.1
    XP_017458020.1
    XP_038942663.1
    XP_038942665.1
    XP_038942666.1
    XP_038942667.1
    XP_063125824.1
    XP_063125826.1
    XP_063125827.1
    XP_063125828.1
    XP_063125829.1
    XP_063125830.1
    XP_063125832.1
    XP_063125833.1

    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_021772.2 → NP_068540.1  cyclin-dependent kinase-like 3

      See identical proteins and their annotated locations for NP_068540.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HE95
      Conserved Domains (2) summary
      smart00220
      Location:4 → 286
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    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_086028.1 Reference GRCr8

      Range
      36755413..36850197
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039086738.2 → XP_038942666.1  cyclin-dependent kinase-like 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    2. XM_063269760.1 → XP_063125830.1  cyclin-dependent kinase-like 3 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZYS3, A0A8I6GKT9

    3. XM_063269762.1 → XP_063125832.1  cyclin-dependent kinase-like 3 isoform X8

      UniProtKB/Swiss-Prot
      Q9JM01, Q9JM02
      UniProtKB/TrEMBL
      A0A8L2R015, A6HE90, A6HE93

    4. XM_063269759.1 → XP_063125829.1  cyclin-dependent kinase-like 3 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZYS3, A0A8I6GKT9
      Related
      ENSRNOP00000072310.2, ENSRNOT00000079411.3

    5. XM_039086735.2 → XP_038942663.1  cyclin-dependent kinase-like 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    6. XM_063269754.1 → XP_063125824.1  cyclin-dependent kinase-like 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZUY6

    7. XM_039086737.2 → XP_038942665.1  cyclin-dependent kinase-like 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    8. XM_017602529.3 → XP_017458018.1  cyclin-dependent kinase-like 3 isoform X2

      UniProtKB/TrEMBL
      A0A0G2K5J4, A6HE87, A6HE88
      Related
      ENSRNOP00000091215.1, ENSRNOT00000098640.2
      Conserved Domains (2) summary
      smart00220
      Location:16 → 298
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cd07846
      Location:14 → 298
      STKc_CDKL2_3; Catalytic domain of the Serine/Threonine Kinases, Cyclin-Dependent protein Kinase Like 2 and 3

    9. XM_008773885.4 → XP_008772107.1  cyclin-dependent kinase-like 3 isoform X3

      See identical proteins and their annotated locations for XP_008772107.1

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    10. XM_008773883.4 → XP_008772105.1  cyclin-dependent kinase-like 3 isoform X1

      See identical proteins and their annotated locations for XP_008772105.1

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (2) summary
      smart00220
      Location:16 → 298
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cl21453
      Location:14 → 298
      PKc_like; Protein Kinases, catalytic domain

    11. XM_008773886.4 → XP_008772108.1  cyclin-dependent kinase-like 3 isoform X3

      See identical proteins and their annotated locations for XP_008772108.1

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    12. XM_008773884.4 → XP_008772106.1  cyclin-dependent kinase-like 3 isoform X3

      See identical proteins and their annotated locations for XP_008772106.1

      UniProtKB/TrEMBL
      A0A8I5ZUY6
      Related
      ENSRNOP00000082633.2, ENSRNOT00000102740.2
      Conserved Domains (1) summary
      cl21453
      Location:2 → 286
      PKc_like; Protein Kinases, catalytic domain

    13. XM_063269756.1 → XP_063125826.1  cyclin-dependent kinase-like 3 isoform X4

      UniProtKB/TrEMBL
      A0A0G2K2N2

    14. XM_039086739.2 → XP_038942667.1  cyclin-dependent kinase-like 3 isoform X11

      Conserved Domains (1) summary
      cl21453
      Location:14 → 298
      PKc_like; Protein Kinases, catalytic domain

    15. XM_063269757.1 → XP_063125827.1  cyclin-dependent kinase-like 3 isoform X6

      UniProtKB/TrEMBL
      A0A8L2R015, A6HE93
      Related
      ENSRNOP00000073449.3, ENSRNOT00000085895.3

    16. XM_008773889.4 → XP_008772111.1  cyclin-dependent kinase-like 3 isoform X5

      See identical proteins and their annotated locations for XP_008772111.1

      UniProtKB/TrEMBL
      A0A8I6GKT9
      Related
      ENSRNOP00000084767.2, ENSRNOT00000099737.2
      Conserved Domains (2) summary
      smart00220
      Location:16 → 298
      S_TKc; Serine/Threonine protein kinases, catalytic domain
      cl21453
      Location:14 → 298
      PKc_like; Protein Kinases, catalytic domain

    17. XM_063269758.1 → XP_063125828.1  cyclin-dependent kinase-like 3 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZYS3, A0A8I6GKT9

    18. XM_063269763.1 → XP_063125833.1  cyclin-dependent kinase-like 3 isoform X9

      UniProtKB/TrEMBL
      A0A8I6GKT9
      Related
      ENSRNOP00000094552.1, ENSRNOT00000120278.2

    19. XM_017602531.3 → XP_017458020.1  cyclin-dependent kinase-like 3 isoform X10

    RNA

    1. XR_010055233.1 RNA Sequence

    2. XR_010055235.1 RNA Sequence

    3. XR_010055234.1 RNA Sequence

    4. XR_597993.4 RNA Sequence

    5. XR_005489935.2 RNA Sequence

    6. XR_010055236.1 RNA Sequence

    7. XR_005489936.2 RNA Sequence

    8. XR_010055232.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001174131.1: Suppressed sequence

      Description
      NM_001174131.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JM01.2 GenPept UniProtKB/Swiss-Prot:Q9JM01

    Gene LinkOut

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

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