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Aliases for CDKL5 Gene

Aliases for CDKL5 Gene

  • Cyclin-Dependent Kinase-Like 5 2 3
  • Serine/Threonine-Protein Kinase 9 3 4
  • Serine/Threonine Kinase 9 2 3
  • EC 4 63
  • STK9 3 4
  • Cyclin Dependent Kinase 5 Transcript 3
  • EC 2.7.11 63
  • EIEE2 3
  • ISSX 3

External Ids for CDKL5 Gene

Previous HGNC Symbols for CDKL5 Gene

  • STK9

Previous GeneCards Identifiers for CDKL5 Gene

  • GC0XP017109
  • GC0XP017645
  • GC0XP017805
  • GC0XP018203
  • GC0XP018353
  • GC0XP016199

Summaries for CDKL5 Gene

Entrez Gene Summary for CDKL5 Gene

  • This gene is a member of Ser/Thr protein kinase family and encodes a phosphorylated protein with protein kinase activity. Mutations in this gene have been associated with X-linked infantile spasm syndrome (ISSX), also known as X-linked West syndrome, and Rett syndrome (RTT). Alternate transcriptional splice variants have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for CDKL5 Gene

CDKL5 (Cyclin-Dependent Kinase-Like 5) is a Protein Coding gene. Diseases associated with CDKL5 include west syndrome and epileptic encephalopathy, early infantile, 2. Among its related pathways are BDNF signaling pathway and Sweet Taste Signaling. 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 CDKL3.

UniProtKB/Swiss-Prot for CDKL5 Gene

  • Mediates phosphorylation of MECP2.

Gene Wiki entry for CDKL5 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDKL5 Gene

Genomics for CDKL5 Gene

Regulatory Elements for CDKL5 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CDKL5 Gene

18,425,583 bp from pter
18,660,858 bp from pter
235,276 bases
Plus strand

Genomic View for CDKL5 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CDKL5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDKL5 Gene

Proteins for CDKL5 Gene

  • Protein details for CDKL5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Cyclin-dependent kinase-like 5
    Protein Accession:
    Secondary Accessions:
    • G9B9X4
    • Q14198
    • Q5H985
    • Q8IYC7
    • Q9UJL6

    Protein attributes for CDKL5 Gene

    1030 amino acids
    Molecular mass:
    115538 Da
    Quaternary structure:
    • Interacts with MECP2.
    • Sequence=CAA61445.1; Type=Frameshift; Positions=415; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CDKL5 Gene

    Alternative splice isoforms for CDKL5 Gene


neXtProt entry for CDKL5 Gene

Proteomics data for CDKL5 Gene at MOPED

Selected DME Specific Peptides for CDKL5 Gene

Post-translational modifications for CDKL5 Gene

Antibody Products

Domains & Families for CDKL5 Gene

Gene Families for CDKL5 Gene

Suggested Antigen Peptide Sequences for CDKL5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 protein kinase domain.
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
  • Contains 1 protein kinase domain.
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
genes like me logo Genes that share domains with CDKL5: view

Function for CDKL5 Gene

Molecular function for CDKL5 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + a protein = ADP + a phosphoprotein
UniProtKB/Swiss-Prot Function:
Mediates phosphorylation of MECP2.

Enzyme Numbers (IUBMB) for CDKL5 Gene

Gene Ontology (GO) - Molecular Function for CDKL5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004672 protein kinase activity IDA 16935860
GO:0004674 protein serine/threonine kinase activity TAS 9721213
GO:0004693 cyclin-dependent protein serine/threonine kinase activity IEA --
GO:0005524 ATP binding IDA 16935860
GO:0016301 kinase activity IDA 15917271
genes like me logo Genes that share ontologies with CDKL5: view
genes like me logo Genes that share phenotypes with CDKL5: view

Animal Models for CDKL5 Gene

MGI Knock Outs for CDKL5:

Animal Model Products

miRNA for CDKL5 Gene

miRTarBase miRNAs that target CDKL5

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CDKL5

In Situ Assay Products

Flow Cytometry Products

No data available for Transcription Factor Targets and HOMER Transcription for CDKL5 Gene

Localization for CDKL5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDKL5 Gene

Subcellular locations from

Jensen Localization Image for CDKL5 Gene COMPARTMENTS Subcellular localization image for CDKL5 gene
Compartment Confidence
nucleus 4
cytosol 2
plasma membrane 2

Gene Ontology (GO) - Cellular Components for CDKL5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 16935860
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA --
GO:0032587 colocalizes_with ruffle membrane ISS --
GO:0032839 dendrite cytoplasm ISS --
genes like me logo Genes that share ontologies with CDKL5: view

Pathways & Interactions for CDKL5 Gene

genes like me logo Genes that share pathways with CDKL5: view

Pathways by source for CDKL5 Gene

1 Qiagen pathway for CDKL5 Gene
1 BioSystems pathway for CDKL5 Gene

SIGNOR curated interactions for CDKL5 Gene

Other effect:

Gene Ontology (GO) - Biological Process for CDKL5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001764 neuron migration ISS --
GO:0006468 protein phosphorylation TAS 9721213
GO:0043547 positive regulation of GTPase activity ISS --
GO:0045773 positive regulation of axon extension ISS --
GO:0046777 protein autophosphorylation IDA 16935860
genes like me logo Genes that share ontologies with CDKL5: view

Drugs & Compounds for CDKL5 Gene

(1) Drugs for CDKL5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0

(1) Additional Compounds for CDKL5 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Antagonist, Gating inhibitor 58-64-0
genes like me logo Genes that share compounds with CDKL5: view

Transcripts for CDKL5 Gene

Unigene Clusters for CDKL5 Gene

Cyclin-dependent kinase-like 5:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CDKL5

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CDKL5 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13
SP1: -
SP2: - - - - -
SP3: -

Relevant External Links for CDKL5 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CDKL5 Gene

mRNA expression in normal human tissues for CDKL5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CDKL5 Gene

This gene is overexpressed in Nasal epithelium (55.5) and Plasma (11.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MOPED, and MaxQB for CDKL5 Gene

SOURCE GeneReport for Unigene cluster for CDKL5 Gene Hs.659851

mRNA Expression by UniProt/SwissProt for CDKL5 Gene

Tissue specificity: Expressed in brain, lung, kidney, prostate, ovary, placenta, pancreas and testis
genes like me logo Genes that share expression patterns with CDKL5: view

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for CDKL5 Gene

Orthologs for CDKL5 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CDKL5 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CDKL5 35
  • 92.07 (n)
  • 97.55 (a)
CDKL5 36
  • 86 (a)
(Canis familiaris)
Mammalia CDKL5 35
  • 92.51 (n)
  • 97.9 (a)
CDKL5 36
  • 96 (a)
(Mus musculus)
Mammalia Cdkl5 35
  • 89.38 (n)
  • 95.8 (a)
Cdkl5 16
Cdkl5 36
  • 93 (a)
(Pan troglodytes)
Mammalia CDKL5 35
  • 98.7 (n)
  • 98.56 (a)
CDKL5 36
  • 99 (a)
(Rattus norvegicus)
Mammalia Cdkl5 35
  • 89.12 (n)
  • 96.02 (a)
(Monodelphis domestica)
Mammalia CDKL5 36
  • 81 (a)
(Ornithorhynchus anatinus)
Mammalia CDKL5 36
  • 81 (a)
(Gallus gallus)
Aves CDKL5 35
  • 79.68 (n)
  • 83.54 (a)
CDKL5 36
  • 83 (a)
(Anolis carolinensis)
Reptilia CDKL5 36
  • 75 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cdkl5 35
  • 72.62 (n)
  • 75.89 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.22826 35
(Danio rerio)
Actinopterygii cdkl5 35
  • 65.86 (n)
  • 68.02 (a)
cdkl5 36
  • 55 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG6800 36
  • 32 (a)
(Caenorhabditis elegans)
Secernentea dyf-18 36
  • 31 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes KIN28 36
  • 31 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 71 (a)
Species with no ortholog for CDKL5:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • corn (Zea mays)
  • 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 CDKL5 Gene

Gene Tree for CDKL5 (if available)
Gene Tree for CDKL5 (if available)

Paralogs for CDKL5 Gene

Paralogs for CDKL5 Gene

(17) SIMAP similar genes for CDKL5 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CDKL5: view

Variants for CDKL5 Gene

Sequence variations from dbSNP and Humsavar for CDKL5 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs767244 -- 18,634,742(+) TTTAA(G/T)TGTTT intron-variant
rs1003600 -- 18,621,963(+) TTTTG(G/T)GGTTT intron-variant
rs1003601 -- 18,621,978(+) TCTAA(A/G)CCACA intron-variant
rs1003602 -- 18,622,090(+) GAGCA(A/G)CATTA intron-variant
rs1015347 -- 18,620,327(-) TAAAC(A/C)AAAAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CDKL5 Gene

Variant ID Type Subtype PubMed ID
nsv6821 CNV Insertion 18451855
nsv528654 CNV Gain 19592680

Variation tolerance for CDKL5 Gene

Residual Variation Intolerance Score: 2.51% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.59; 44.90% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDKL5 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDKL5 Gene

Disorders for CDKL5 Gene

MalaCards: The human disease database

(20) MalaCards diseases for CDKL5 Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, NovoSeek, and GeneCards

Disorder Aliases PubMed IDs
west syndrome
  • epileptic encephalopathy, early infantile, 1
epileptic encephalopathy, early infantile, 2
  • eiee2
autistic disorder
  • autism
cdkl5-related angelman-like syndrome
ohtahara syndrome
  • epileptic encephalopathy, early infantile, 15
- elite association
Search CDKL5 in MalaCards View complete list of genes associated with diseases


  • Epileptic encephalopathy, early infantile, 2 (EIEE2) [MIM:300672]: A severe form of epilepsy characterized by seizures or spasms beginning in infancy. Patients with epileptic encephalopathy early infantile type 2 manifest features resembling Rett syndrome such as microcephaly, lack of speech development, stereotypic hand movements. However, EIEE2 and Rett syndrome are considered two distinct entities. {ECO:0000269 PubMed:12736870, ECO:0000269 PubMed:15492925, ECO:0000269 PubMed:15499549, ECO:0000269 PubMed:15689447, ECO:0000269 PubMed:15917271, ECO:0000269 PubMed:16015284, ECO:0000269 PubMed:16611748, ECO:0000269 PubMed:17993579, ECO:0000269 PubMed:18790821, ECO:0000269 PubMed:18809835, ECO:0000269 PubMed:19241098, ECO:0000269 PubMed:19253388, ECO:0000269 PubMed:24564546}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Note=Chromosomal aberrations involving CDKL5 are found in patients manifesting early-onset seizures and spams and psychomotor impairment. Translocation t(X;6)(p22.3;q14); translocation t(X;7)(p22.3;p15).

Relevant External Links for CDKL5

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with CDKL5: view

No data available for Genatlas for CDKL5 Gene

Publications for CDKL5 Gene

  1. Functional consequences of mutations in CDKL5, an X-linked gene involved in infantile spasms and mental retardation. (PMID: 16935860) Bertani I. … Kilstrup-Nielsen C. (J. Biol. Chem. 2006) 2 23 67
  2. Mutations in MEF2C from the 5q14.3q15 microdeletion syndrome region are a frequent cause of severe mental retardation and diminish MECP2 and CDKL5 expression. (PMID: 20513142) Zweier M. … Rauch A. (Hum. Mutat. 2010) 23 67
  3. Epilepsy and mental retardation limited to females with PCDH19 mutations can present de novo or in single generation families. (PMID: 19752159) Hynes K. … Scheffer I.E. (J. Med. Genet. 2010) 23 67
  4. A novel p.Arg970X mutation in the last exon of the CDKL5 gene resulting in late-onset seizure disorder. (PMID: 19428276) Psoni S. … Kitsiou-Tzeli S. (Eur. J. Paediatr. Neurol. 2010) 23 67
  5. Xp22.3 genomic deletions involving the CDKL5 gene in girls with early onset epileptic encephalopathy. (PMID: 19780792) Mei D. … Guerrini R. (Epilepsia 2010) 23 67

Products for CDKL5 Gene

Sources for CDKL5 Gene

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