This gene encodes a member of the CDC2-like (or LAMMER) family of dual specificity protein kinases. In the nucleus, the encoded protein phosphorylates serine/arginine-rich proteins involved in pre-mRNA processing, releasing them into the nucleoplasm. The choice of splice sites during pre-mRNA processing may be regulated by the concentration of transacting factors, including ser... See more...

Aliases for CLK1 Gene

Aliases for CLK1 Gene

  • CDC Like Kinase 1 2 3 5
  • Dual Specificity Protein Kinase CLK1 3 4
  • CDC-Like Kinase 1 2 4
  • EC 2.7.12.1 4 52
  • CLK 3 4
  • Protein Tyrosine Kinase STY 3
  • CDC28/CDC2-Like Kinase 3
  • CLK/STY 3
  • STY 3

External Ids for CLK1 Gene

Previous GeneCards Identifiers for CLK1 Gene

  • GC02M199934
  • GC02M200442
  • GC02M201681
  • GC02M201920
  • GC02M201533
  • GC02M201425
  • GC02M201417
  • GC02M201717
  • GC02M193569

Summaries for CLK1 Gene

Entrez Gene Summary for CLK1 Gene

  • This gene encodes a member of the CDC2-like (or LAMMER) family of dual specificity protein kinases. In the nucleus, the encoded protein phosphorylates serine/arginine-rich proteins involved in pre-mRNA processing, releasing them into the nucleoplasm. The choice of splice sites during pre-mRNA processing may be regulated by the concentration of transacting factors, including serine/arginine rich proteins. Therefore, the encoded protein may play an indirect role in governing splice site selection. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jun 2009]

GeneCards Summary for CLK1 Gene

CLK1 (CDC Like Kinase 1) is a Protein Coding gene. Among its related pathways are Legionellosis and mRNA Splicing - Major Pathway. Gene Ontology (GO) annotations related to this gene include transferase activity, transferring phosphorus-containing groups and protein tyrosine kinase activity. An important paralog of this gene is CLK4.

UniProtKB/Swiss-Prot Summary for CLK1 Gene

  • Dual specificity kinase acting on both serine/threonine and tyrosine-containing substrates. Phosphorylates serine- and arginine-rich (SR) proteins of the spliceosomal complex and may be a constituent of a network of regulatory mechanisms that enable SR proteins to control RNA splicing. Phosphorylates: SRSF1, SRSF3 and PTPN1. Regulates the alternative splicing of tissue factor (F3) pre-mRNA in endothelial cells and adenovirus E1A pre-mRNA.

Tocris Summary for CLK1 Gene

  • CLKs (Cdc2-like kinase) are dual specificity protein kinases which are involved in gene splicing regulation. The CLK family has four family members: CLK1/STY, CLK2, CLK3 and CLK4. CLKs are useful targets for studying diseases attributed to gene mis-splicing events.

Gene Wiki entry for CLK1 Gene

Additional gene information for CLK1 Gene

No data available for CIViC Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CLK1 Gene

Genomics for CLK1 Gene

GeneHancer (GH) Regulatory Elements for CLK1 Gene

Promoters and enhancers for CLK1 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CLK1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CLK1

Top Transcription factor binding sites by QIAGEN in the CLK1 gene promoter:
  • AML1a
  • c-Myc
  • FOXF2
  • FOXJ2
  • FOXJ2 (long isoform)
  • GATA-6
  • IRF-7A
  • Max1
  • POU2F1
  • POU2F1a

Genomic Locations for CLK1 Gene

Genomic Locations for CLK1 Gene
chr2:200,853,009-200,864,744
(GRCh38/hg38)
Size:
11,736 bases
Orientation:
Minus strand
chr2:201,717,732-201,729,467
(GRCh37/hg19)
Size:
11,736 bases
Orientation:
Minus strand

Genomic View for CLK1 Gene

Genes around CLK1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLK1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLK1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLK1 Gene

Proteins for CLK1 Gene

  • Protein details for CLK1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P49759-CLK1_HUMAN
    Recommended name:
    Dual specificity protein kinase CLK1
    Protein Accession:
    P49759
    Secondary Accessions:
    • B4DFW7
    • Q0P694
    • Q8N5V8

    Protein attributes for CLK1 Gene

    Size:
    484 amino acids
    Molecular mass:
    57291 Da
    Quaternary structure:
    • Interacts with PPIG and UBL5.
    Miscellaneous:
    • [Isoform 2]: Lacks the kinase domain. May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay.

    Three dimensional structures from OCA and Proteopedia for CLK1 Gene

    Alternative splice isoforms for CLK1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLK1 Gene

Selected DME Specific Peptides for CLK1 Gene

P49759:
  • HICIVFE
  • VSTRHYRAPEVIL
  • LTHTDLKPENILFV
  • EHLAMMER

Post-translational modifications for CLK1 Gene

Other Protein References for CLK1 Gene

Domains & Families for CLK1 Gene

Gene Families for CLK1 Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for CLK1 Gene

Suggested Antigen Peptide Sequences for CLK1 Gene

GenScript: Design optimal peptide antigens:
  • CDC-like kinase 1 (CLK1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P49759

UniProtKB/Swiss-Prot:

CLK1_HUMAN :
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. Lammer subfamily.
Family:
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. Lammer subfamily.
genes like me logo Genes that share domains with CLK1: view

Function for CLK1 Gene

Molecular function for CLK1 Gene

UniProtKB/Swiss-Prot Function:
Dual specificity kinase acting on both serine/threonine and tyrosine-containing substrates. Phosphorylates serine- and arginine-rich (SR) proteins of the spliceosomal complex and may be a constituent of a network of regulatory mechanisms that enable SR proteins to control RNA splicing. Phosphorylates: SRSF1, SRSF3 and PTPN1. Regulates the alternative splicing of tissue factor (F3) pre-mRNA in endothelial cells and adenovirus E1A pre-mRNA.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]; Xref=Rhea:RHEA:17989, Rhea:RHEA-COMP:9863, Rhea:RHEA-COMP:11604, ChEBI:CHEBI:15378, ChEBI:CHEBI:29999, ChEBI:CHEBI:30616, ChEBI:CHEBI:83421, ChEBI:CHEBI:456216; EC=2.7.12.1;.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]; Xref=Rhea:RHEA:46608, Rhea:RHEA-COMP:11060, Rhea:RHEA-COMP:11605, ChEBI:CHEBI:15378, ChEBI:CHEBI:30013, ChEBI:CHEBI:30616, ChEBI:CHEBI:61977, ChEBI:CHEBI:456216; EC=2.7.12.1;.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + L-tyrosyl-[protein] = ADP + H(+) + O-phospho-L-tyrosyl-[protein]; Xref=Rhea:RHEA:10596, Rhea:RHEA-COMP:10136, Rhea:RHEA-COMP:10137, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, ChEBI:CHEBI:46858, ChEBI:CHEBI:82620, ChEBI:CHEBI:456216; EC=2.7.12.1;.
UniProtKB/Swiss-Prot EnzymeRegulation:
Regulates splicing of its own pre-mRNA according to its kinase activity; increased expression of the catalytically active form influences splicing to generate the catalytically inactive splicing variant lacking the kinase domain. Leucettine L41 inhibits its kinase activity and affects the regulation of alternative splicing mediated by phosphorylation of SR proteins (By similarity).
GENATLAS Biochemistry:
CDC-like kinase 1,with two alternatively spliced forms,one catalytically active and one inactive isoforms,interacting with and inducing the nuclear redistribution of SR proteins SFRS* (see symbols),widely expressed

Enzyme Numbers (IUBMB) for CLK1 Gene

Phenotypes From GWAS Catalog for CLK1 Gene

Gene Ontology (GO) - Molecular Function for CLK1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004672 protein kinase activity IEA --
GO:0004674 protein serine/threonine kinase activity IEA,IDA 10480872
GO:0004712 protein serine/threonine/tyrosine kinase activity IEA --
GO:0004713 protein tyrosine kinase activity IEA --
GO:0004715 non-membrane spanning protein tyrosine kinase activity TAS 1825055
genes like me logo Genes that share ontologies with CLK1: view
genes like me logo Genes that share phenotypes with CLK1: view

Animal Models for CLK1 Gene

MGI Knock Outs for CLK1:
  • Clk1 Clk1<tm1a(EUCOMM)Wtsi>

Animal Model Products

  • Taconic Biosciences Mouse Models for CLK1

CRISPR Products

miRNA for CLK1 Gene

miRTarBase miRNAs that target CLK1

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CLK1

Clone Products

  • Addgene plasmids for CLK1

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLK1 Gene

Localization for CLK1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLK1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLK1 gene
Compartment Confidence
nucleus 5
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear membrane (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CLK1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with CLK1: view

Pathways & Interactions for CLK1 Gene

PathCards logo

SuperPathways for CLK1 Gene

SuperPathway Contained pathways
1 Legionellosis
2 mRNA Splicing - Major Pathway
genes like me logo Genes that share pathways with CLK1: view

Pathways by source for CLK1 Gene

1 BioSystems pathway for CLK1 Gene
1 KEGG pathway for CLK1 Gene

SIGNOR curated interactions for CLK1 Gene

Activates:
Inactivates:

Gene Ontology (GO) - Biological Process for CLK1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006468 protein phosphorylation IEA --
GO:0016310 phosphorylation IEA --
GO:0018105 peptidyl-serine phosphorylation IEA --
GO:0018107 peptidyl-threonine phosphorylation IEA --
GO:0018108 peptidyl-tyrosine phosphorylation IEA --
genes like me logo Genes that share ontologies with CLK1: view

Drugs & Compounds for CLK1 Gene

(8) Drugs for CLK1 Gene - From: DrugBank, ApexBio, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
fostamatinib Approved, Investigational Pharma Target, inhibitor Kinase Inhibitors 0
Debromohymenialdisine Experimental Pharma Target 0
ethyl 3-[(E)-2-amino-1-cyanoethenyl]-6,7-dichloro-1-methyl-1H-indole-2-carboxylate Experimental Pharma Target 0
CHGN111 Investigational Pharma Target 0
ATP Investigational Nutra Agonist, Activator, Full agonist, Antagonist, Pore Blocker, Potentiation 0

(2) Additional Compounds for CLK1 Gene - From: HMDB and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • 5'-Adenylphosphoric acid
  • Adenosine 5'-diphosphate
  • ADENOSINE-5'-diphosphATE
  • H3ADP
  • 5'-Adenylphosphate
Full agonist, Agonist, Partial agonist, Antagonist, Gating inhibitor 58-64-0
TG 003
719277-26-6

(1) Tocris Compounds for CLK1 Gene

Compound Action Cas Number
TG 003 Potent inhibitor of Clk-family kinases; also inhibits DYRK1A/B 719277-26-6

(2) ApexBio Compounds for CLK1 Gene

Compound Action Cas Number
KH CB19 inhibitor of CLK1 and CLK4, potent and selective 1354037-26-5
TG003 Cdc2-like kinase (Clk) inhibitor 300801-52-9
genes like me logo Genes that share compounds with CLK1: view

Drug Products

Transcripts for CLK1 Gene

mRNA/cDNA for CLK1 Gene

3 REFSEQ mRNAs :
15 NCBI additional mRNA sequence :
15 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CLK1

Clone Products

  • Addgene plasmids for CLK1

Alternative Splicing Database (ASD) splice patterns (SP) for CLK1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c · 4d · 4e · 4f ^ 5a · 5b · 5c ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9a · 9b ^
SP1: - - - - - - - - - - - -
SP2: - - - - - - - - - - - - -
SP3: - - - - - - - -
SP4: - - - - - - - - - - - - -
SP5: - - -
SP6: - - - - - - -
SP7: - - - - - - - - - -
SP8: - - - - - -
SP9: - - - - - - - - -
SP10:
SP11:
SP12: - - -
SP13:
SP14: - - - -
SP15: -
SP16: - - - - -

ExUns: 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14a · 14b
SP1: -
SP2: -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:

Relevant External Links for CLK1 Gene

GeneLoc Exon Structure for
CLK1

Expression for CLK1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CLK1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CLK1 Gene

This gene is overexpressed in Serum (50.3) and Peripheral blood mononuclear cells (11.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CLK1 Gene



Protein tissue co-expression partners for CLK1 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CLK1

SOURCE GeneReport for Unigene cluster for CLK1 Gene:

Hs.433732

mRNA Expression by UniProt/SwissProt for CLK1 Gene:

P49759-CLK1_HUMAN
Tissue specificity: Endothelial cells.

Evidence on tissue expression from TISSUES for CLK1 Gene

  • Nervous system(5)
  • Blood(4.1)
  • Bone(4)
  • Lung(2.7)
  • Kidney(2.6)
  • Spleen(2.6)
  • Muscle(2.3)
  • Heart(2)
  • Liver(2)
genes like me logo Genes that share expression patterns with CLK1: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLK1 Gene

Orthologs for CLK1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CLK1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLK1 31 30
  • 99.68 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CLK1 31
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CLK1 31 30
  • 90.65 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Clk1 17 31 30
  • 88.15 (n)
rat
(Rattus norvegicus)
Mammalia Clk1 30
  • 87.94 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CLK1 31
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CLK1 31
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves CLK1 31 30
  • 73.68 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CLK1 31
  • 79 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia clk1 30
  • 70.32 (n)
zebrafish
(Danio rerio)
Actinopterygii clk4b 31
  • 58 (a)
ManyToMany
clk4a 31
  • 56 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta Doa 31 32
  • 13 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea tag-172 31
  • 23 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes KNS1 33 31
  • 23 (a)
corn
(Zea mays)
Liliopsida Zm.16829 30
sea squirt
(Ciona savignyi)
Ascidiacea CSA.719 31
  • 48 (a)
OneToMany
Species where no ortholog for CLK1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CLK1 Gene

ENSEMBL:
Gene Tree for CLK1 (if available)
TreeFam:
Gene Tree for CLK1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CLK1: view image

Paralogs for CLK1 Gene

(9) SIMAP similar genes for CLK1 Gene using alignment to 3 proteins:

  • CLK1_HUMAN
  • B8ZZR0_HUMAN
  • F8WBF5_HUMAN
genes like me logo Genes that share paralogs with CLK1: view

Variants for CLK1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CLK1 Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
rs12709 - p.Glu459Gly
rs35393352 - p.Met440Thr
rs35412475 - p.Pro307Ser
rs55989135 - p.Ser61Phe
rs56135616 - p.Arg118Gly

Additional dbSNP identifiers (rs#s) for CLK1 Gene

Variation tolerance for CLK1 Gene

Residual Variation Intolerance Score: 7.46% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.65; 31.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLK1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLK1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for CLK1 Gene

Disorders for CLK1 Gene

Additional Disease Information for CLK1

No disorders were found for CLK1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLK1 Gene

Publications for CLK1 Gene

  1. Molecular cloning of a novel human cdc2/CDC28-like protein kinase. (PMID: 1704889) Johnson KW … Smith KA (The Journal of biological chemistry 1991) 3 4 23 54
  2. Cdc2-like kinases and DNA topoisomerase I regulate alternative splicing of tissue factor in human endothelial cells. (PMID: 19168442) Eisenreich A … Rauch U (Circulation research 2009) 3 4 54
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 54
  4. An unappreciated role for RNA surveillance. (PMID: 14759258) Hillman RT … Brenner SE (Genome biology 2004) 3 4 54
  5. Manipulation of alternative splicing by a newly developed inhibitor of Clks. (PMID: 15010457) Muraki M … Hagiwara M (The Journal of biological chemistry 2004) 3 23 54

Products for CLK1 Gene

Sources for CLK1 Gene