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    Clk4 CDC like kinase 4 [ Mus musculus (house mouse) ]

    Gene ID: 12750, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Clk4provided by MGI
    Official Full Name
    CDC like kinase 4provided by MGI
    Primary source
    MGI:MGI:1098551
    See related
    Ensembl:ENSMUSG00000020385 AllianceGenome:MGI:1098551
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Enables protein serine/threonine kinase activity and protein tyrosine kinase activity. Acts upstream of or within peptidyl-tyrosine phosphorylation and protein autophosphorylation. Located in nucleus. Is expressed in several structures, including endocrine gland; gonad; hemolymphoid system gland; liver; and tongue. Orthologous to human CLK4 (CDC like kinase 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E14 (RPKM 17.6), CNS E11.5 (RPKM 16.5) and 26 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Clk4 in Genome Data Viewer
    Location:
    11 B1.3; 11 31.02 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (51153941..51172597)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (51263114..51281770)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene pluripotency associated transcript 20 Neighboring gene Myb/SANT DNA binding domain containing 5 Neighboring gene STARR-positive B cell enhancer ABC_E5223 Neighboring gene Myb/SANT DNA binding domain containing 5 like Neighboring gene collagen, type XXIII, alpha 1 Neighboring gene STARR-positive B cell enhancer mm9_chr11:51347850-51348150 Neighboring gene STARR-positive B cell enhancer ABC_E6980 Neighboring gene STARR-seq mESC enhancer starr_29416 Neighboring gene STARR-positive B cell enhancer ABC_E3947 Neighboring gene 5-phosphohydroxy-L-lysine phospholyase Neighboring gene heterogeneous nuclear ribonucleoprotein A/B

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Construction of a 3-Mb contig and partial transcript map of the central region of mouse chromosome 11. Watkins-Chow DE, et al. Genomics, 1997 Oct 1. PMID 9339371
    2. CDC-like kinase 4 deficiency contributes to pathological cardiac hypertrophy by modulating NEXN phosphorylation. Huang J, et al. Nat Commun, 2022 Jul 30. PMID 35907876, Free PMC Article
    3. Regulation of alternative splicing of human tau exon 10 by phosphorylation of splicing factors. Hartmann AM, et al. Mol Cell Neurosci, 2001 Jul. PMID 11461155
    4. Stress-responsive maturation of Clk1/4 pre-mRNAs promotes phosphorylation of SR splicing factor. Ninomiya K, et al. J Cell Biol, 2011 Oct 3. PMID 21949414, Free PMC Article
    5. Novel SR-rich-related protein clasp specifically interacts with inactivated Clk4 and induces the exon EB inclusion of Clk. Katsu R, et al. J Biol Chem, 2002 Nov 15. PMID 12169693

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CDC-like kinase 4 deficiency contributes to pathological cardiac hypertrophy by modulating NEXN phosphorylation.
      Title: CDC-like kinase 4 deficiency contributes to pathological cardiac hypertrophy by modulating NEXN phosphorylation.
    2. Clk1/4 expression induced by stress-responsive splicing serves to maintain the phosphorylation state of SR proteins.
      Title: Stress-responsive maturation of Clk1/4 pre-mRNAs promotes phosphorylation of SR splicing factor.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3)  1 citation
    • Gene trapped (1) 

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H2AXY142 kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3Y41 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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein serine/threonine/tyrosine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein tyrosine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein tyrosine kinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within peptidyl-tyrosine phosphorylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of RNA splicing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of RNA splicing ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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
    dual specificity protein kinase CLK4
    NP_001291673.1
    NP_001349464.1
    NP_001349465.1
    NP_001349467.1
    NP_001349468.1
    NP_001349469.1
    NP_001349470.1
    NP_031740.1
    XP_006532175.1
    XP_006532177.1
    XP_006532181.1
    XP_011247010.1
    XP_017169732.1
    XP_030101370.1
    XP_030101371.1
    XP_036012164.1

    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_001304744.1 → NP_001291673.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks two alternate exons in the 5' region and uses a downstream start codon compared to variant 1. It encodes isoform 2 which has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AL645907
      Consensus CDS
      CCDS78942.1
      UniProtKB/Swiss-Prot
      O35493
      Related
      ENSMUSP00000104741.2, ENSMUST00000109113.8
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    2. NM_001362535.1 → NP_001349464.1  dual specificity protein kinase CLK4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Conserved Domains (1) summary
      cd14213
      Location:149 → 478
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    3. NM_001362536.1 → NP_001349465.1  dual specificity protein kinase CLK4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Conserved Domains (1) summary
      cd14213
      Location:110 → 439
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    4. NM_001362538.1 → NP_001349467.1  dual specificity protein kinase CLK4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Conserved Domains (1) summary
      cd14213
      Location:110 → 439
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    5. NM_001362539.1 → NP_001349468.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Consensus CDS
      CCDS78942.1
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    6. NM_001362540.1 → NP_001349469.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Consensus CDS
      CCDS78942.1
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    7. NM_001362541.1 → NP_001349470.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907
      Consensus CDS
      CCDS78942.1
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    8. NM_001430880.1 → NP_001417809.1  dual specificity protein kinase CLK4 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AL645907

    9. NM_001430881.1 → NP_001417810.1  dual specificity protein kinase CLK4 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AL645907

    10. NM_001430882.1 → NP_001417811.1  dual specificity protein kinase CLK4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL645907

    11. NM_001430883.1 → NP_001417812.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907

    12. NM_001430884.1 → NP_001417813.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907

    13. NM_001430885.1 → NP_001417814.1  dual specificity protein kinase CLK4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL645907

    14. NM_007714.6 → NP_031740.1  dual specificity protein kinase CLK4 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL645907
      Consensus CDS
      CCDS24651.1
      UniProtKB/Swiss-Prot
      O35493, O35721, Q8CEU9, Q99LU6
      UniProtKB/TrEMBL
      Q4FJV9
      Related
      ENSMUSP00000090820.7, ENSMUST00000093132.13
      Conserved Domains (1) summary
      cd14213
      Location:146 → 475
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      51153941..51172597
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006532118.3 → XP_006532181.1  dual specificity protein kinase CLK4 isoform X4

      UniProtKB/Swiss-Prot
      O35493
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    2. XM_006532112.5 → XP_006532175.1  dual specificity protein kinase CLK4 isoform X3

      Conserved Domains (1) summary
      cd14213
      Location:110 → 439
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    3. XM_030245511.2 → XP_030101371.1  dual specificity protein kinase CLK4 isoform X4

      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    4. XM_006532114.5 → XP_006532177.1  dual specificity protein kinase CLK4 isoform X4

      UniProtKB/Swiss-Prot
      O35493
      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    5. XM_017314243.2 → XP_017169732.1  dual specificity protein kinase CLK4 isoform X1

      Conserved Domains (1) summary
      cd14213
      Location:175 → 504
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    6. XM_036156271.1 → XP_036012164.1  dual specificity protein kinase CLK4 isoform X4

      Conserved Domains (1) summary
      cl21453
      Location:1 → 295
      PKc_like; Protein Kinases, catalytic domain

    7. XM_030245510.2 → XP_030101370.1  dual specificity protein kinase CLK4 isoform X3

      Conserved Domains (1) summary
      cd14213
      Location:110 → 439
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

    8. XM_011248708.4 → XP_011247010.1  dual specificity protein kinase CLK4 isoform X2

      Conserved Domains (1) summary
      cd14213
      Location:155 → 484
      PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O35493.1 GenPept UniProtKB/Swiss-Prot:O35493

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