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Clk1 CDC-like kinase 1 [ Mus musculus (house mouse) ]

Gene ID: 12747, updated on 2-Nov-2024

Summary

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Official Symbol
Clk1provided by MGI
Official Full Name
CDC-like kinase 1provided by MGI
Primary source
MGI:MGI:107403
See related
Ensembl:ENSMUSG00000026034 AllianceGenome:MGI:107403
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
Also known as
STY
Summary
Enables protein serine/threonine kinase activity and protein tyrosine kinase activity. Acts upstream of or within protein phosphorylation. Located in nucleus. Is expressed in several structures, including central nervous system; genitourinary system; liver; neural retina; and thyroid gland. Orthologous to human CLK1 (CDC like kinase 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in bladder adult (RPKM 71.4), limb E14.5 (RPKM 59.9) and 23 other tissues See more
Orthologs
human all
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Genomic context

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See Clk1 in Genome Data Viewer
Location:
1 C1.3; 1 29.09 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (58451147..58463247, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (58411988..58424088, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:58450605-58450792 Neighboring gene ribosomal protein S27 pseudogene Neighboring gene predicted gene, 53481 Neighboring gene basic leucine zipper and W2 domains 1 Neighboring gene STARR-seq mESC enhancer starr_01013 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:58480276-58480459 Neighboring gene STARR-positive B cell enhancer ABC_E5756 Neighboring gene peptidylprolyl isomerase (cyclophilin)-like 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:58501960-58502147 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:58502340-58502523 Neighboring gene Ngg1 interacting factor 3-like 1 (S. pombe) Neighboring gene predicted gene, 23966 Neighboring gene origin recognition complex, subunit 2

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 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. Legionella translocates an E3 ubiquitin ligase that has multiple U-boxes with distinct functions. Kubori T, et al. Mol Microbiol, 2008 Mar. PMID 18284575
  2. The aging-associated enzyme CLK-1 is a member of the carboxylate-bridged diiron family of proteins. Behan RK, et al. Biochemistry, 2010 Nov 16. PMID 20923139, Free PMC Article
  3. Regulation of influenza A virus mRNA splicing by CLK1. Artarini A, et al. Antiviral Res, 2019 Aug. PMID 31176694
  4. Alternative splicing of STY, a nuclear dual specificity kinase. Duncan PI, et al. J Biol Chem, 1995 Sep 15. PMID 7665564
  5. Clk1 deficiency promotes neuroinflammation and subsequent dopaminergic cell death through regulation of microglial metabolic reprogramming. Gu R, et al. Brain Behav Immun, 2017 Feb. PMID 27769915

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Cdc-like kinase 1 (CLK1) knockdown reduces influenza A replication and increased the level of splicing of segment 7, which encodes the viral M1 and M2 proteins. CLK1-/- mice infected with influenza A virus supports lower levels of virus replication than wild-type mice.
    Title: Regulation of influenza A virus mRNA splicing by CLK1.
  2. that Clk1 regulates microglial metabolic reprogramming that is, in turn, involved in the neuroinflammatory processes and Parkinson's disease
    Title: Clk1 deficiency promotes neuroinflammation and subsequent dopaminergic cell death through regulation of microglial metabolic reprogramming.
  3. Indicate a close relationship between lifespan extension and decreased mitochondrial function, which was induced by the transgenic expression of clk-1, in leg skeletal muscles that exhibit high metabolic activity.
    Title: Extended lifespan, reduced body size and leg skeletal muscle mass, and decreased mitochondrial function in clk-1 transgenic mice.
  4. This study demonstrates the role of Akt and Clk1 kinases in the early differentiation of 3T3-L1 cells to adipocytes.
    Title: Clk/STY (cdc2-like kinase 1) and Akt regulate alternative splicing and adipogenesis in 3T3-L1 pre-adipocytes.
  5. The results indicate that clk-1 regulates growth and heart rates through CoQ-mediated mitochondrial functions in mouse embryos.
    Title: Reversal of slow growth and heartbeat through the restoration of mitochondrial function in clk-1-deficient mouse embryos by exogenous administration of coenzyme Q10.
  6. 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.
  7. Analyses of the in vitro activity of MCLK1 with quinone substrates revealed that NADH can serve directly as a reductant for catalytic activation of dioxygen and substrate oxidation
    Title: The aging-associated enzyme CLK-1 is a member of the carboxylate-bridged diiron family of proteins.
  8. Akt2-catalyzed phosphorylation of Clk/Sty and SR proteins revealed a role for both kinases in splicing regulation indicating dual functions for Akt2 in response to insulin in this pathway.
    Title: Akt2 regulation of Cdc2-like kinases (Clk/Sty), serine/arginine-rich (SR) protein phosphorylation, and insulin-induced alternative splicing of PKCbetaII messenger ribonucleic acid.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Gene trapped (1) 
  • Targeted (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
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 kinase activity ISO
Inferred from Sequence Orthology
more info
  
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
acts_upstream_of_or_within peptidyl-serine phosphorylation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within peptidyl-threonine phosphorylation IDA
Inferred from Direct Assay
more info
 PubMed 
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 protein phosphorylation IEA
Inferred from Electronic Annotation
more info
  
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 CLK1
Names
protein kinase STY
NP_001036099.1

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_001042634.2 → NP_001036099.1  dual specificity protein kinase CLK1

    See identical proteins and their annotated locations for NP_001036099.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the functional protein.
    Source sequence(s)
    AC121091, AK135765
    Consensus CDS
    CCDS35577.1
    UniProtKB/Swiss-Prot
    A6H6K2, P22518, Q3UXB6
    Related
    ENSMUSP00000034868.8, ENSMUST00000034868.14
    Conserved Domains (2) summary
    smart00220
    Location:160 → 476
    S_TKc; Serine/Threonine protein kinases, catalytic domain
    cd14213
    Location:147 → 476
    PKc_CLK1_4; Catalytic domain of the Dual-specificity protein kinases, CDC-like kinases 1 and 4

RNA

  1. NR_027853.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC121091
    Related
    ENSMUST00000148330.8

  2. NR_027854.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) retains several introns, compared to variant 1. The transcript is sufficiently abundant to represent as a RefSeq record; however, the variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC121091, BC062887

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    58451147..58463247 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_009905.2: Suppressed sequence

    Description
    NM_009905.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P22518.2 GenPept UniProtKB/Swiss-Prot:P22518

Gene LinkOut

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

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