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Aliases for CDKL3 Gene

Aliases for CDKL3 Gene

  • Cyclin Dependent Kinase Like 3 2 3 5
  • Serine-Threonine Protein Kinase NKIAMRE 2 3
  • Cyclin-Dependent Kinase-Like 3 2 3
  • EC 4 61
  • NKIAMRE 3 4
  • Serine/Threonine-Protein Kinase NKIAMRE 4
  • EC 2.7.11 61

External Ids for CDKL3 Gene

Previous GeneCards Identifiers for CDKL3 Gene

  • GC05M133292
  • GC05M134158
  • GC05M133664
  • GC05M133710
  • GC05M133662
  • GC05M128818
  • GC05M133541

Summaries for CDKL3 Gene

Entrez Gene Summary for CDKL3 Gene

  • The protein encoded by this gene is a member of cyclin-dependent protein kinase (CDK) family. CDK family members are highly similar to the gene products of Saccharomyces cerevisiae cdc28, and Schizosaccharomyces pombe cdc2, and are known to be important regulators of cell cycle progression. This gene was identified as a gene absent in leukemic patients with chromosome 5q deletion. This loss may be an important determinant of dysmyelopoiesis. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]

GeneCards Summary for CDKL3 Gene

CDKL3 (Cyclin Dependent Kinase Like 3) is a Protein Coding gene. Diseases associated with CDKL3 include Orofaciodigital Syndrome Vi and Joubert Syndrome 1. 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 CDKL2.

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDKL3 Gene

Genomics for CDKL3 Gene

Regulatory Elements for CDKL3 Gene

Enhancers for CDKL3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05G134410 1.4 FANTOM5 ENCODE 10.5 -43.3 -43322 8.5 CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 NFYC ZNF610 RCOR2 RNU6-456P JADE2 C5orf66 CDKL3 SKP1 CDKN2AIPNL RPS10P11
GH05G134757 1.2 ENCODE 10.3 -387.7 -387693 2.6 MLX CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 ZNF263 SP3 C5orf66 C5orf24 SEC24A CDKL3 DDX46 RPL34P13
GH05G134094 0.9 dbSUPER 10.3 +276.5 276501 0.8 ZNF493 RAD21 ZEB1 YY1 ZNF121 ZNF138 KLF7 ZNF548 ZNF202 SP3 CDKL3 TCF7 LOC105379185 LOC101060024
GH05G134098 1.9 FANTOM5 Ensembl ENCODE dbSUPER 3.7 +271.1 271134 4.1 PKNOX1 FOXA2 MLX WRNIP1 ARID4B DMAP1 YBX1 YY1 ZNF143 ZNF263 TCF7 JADE2 CDKL3 PPP2CA LOC105379185 LOC101060024
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CDKL3 on UCSC Golden Path with GeneCards custom track

Promoters for CDKL3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000187072 -531 2801 MLX CREB3L1 FEZF1 DMAP1 YY1 ZNF143 ZNF548 ZNF263 SP3 NFYC

Genomic Location for CDKL3 Gene

134,236,120 bp from pter
134,371,469 bp from pter
135,350 bases
Minus strand

Genomic View for CDKL3 Gene

Genes around CDKL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDKL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDKL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDKL3 Gene

Proteins for CDKL3 Gene

  • Protein details for CDKL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Cyclin-dependent kinase-like 3
    Protein Accession:
    Secondary Accessions:
    • D3DQA0
    • D3DQA1
    • Q9P114

    Protein attributes for CDKL3 Gene

    592 amino acids
    Molecular mass:
    67514 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for CDKL3 Gene

    Alternative splice isoforms for CDKL3 Gene


neXtProt entry for CDKL3 Gene

Selected DME Specific Peptides for CDKL3 Gene


Post-translational modifications for CDKL3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains & Families for CDKL3 Gene

Gene Families for CDKL3 Gene

Protein Domains for CDKL3 Gene

Graphical View of Domain Structure for InterPro Entry



  • The [NKR]KIAxRE motif seems to be a cyclin-binding region.
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
  • The [NKR]KIAxRE motif seems to be a cyclin-binding region.
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
genes like me logo Genes that share domains with CDKL3: view

Function for CDKL3 Gene

Molecular function for CDKL3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + a protein = ADP + a phosphoprotein.

Enzyme Numbers (IUBMB) for CDKL3 Gene

Gene Ontology (GO) - Molecular Function for CDKL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004672 protein kinase activity TAS 10463609
GO:0004674 protein serine/threonine kinase activity IEA --
GO:0004693 cyclin-dependent protein serine/threonine kinase activity IBA --
GO:0005515 protein binding IPI 25416956
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with CDKL3: view
genes like me logo Genes that share phenotypes with CDKL3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CDKL3

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CDKL3 Gene

Localization for CDKL3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDKL3 Gene


Subcellular locations from

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 CDKL3 gene
Compartment Confidence
nucleus 5
cytosol 3
golgi apparatus 2

Gene Ontology (GO) - Cellular Components for CDKL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with CDKL3: view

Pathways & Interactions for CDKL3 Gene

SuperPathways for CDKL3 Gene

No Data Available

Pathways by source for CDKL3 Gene

1 GeneTex pathway for CDKL3 Gene

Gene Ontology (GO) - Biological Process for CDKL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006464 cellular protein modification process TAS 10463609
GO:0006468 protein phosphorylation IEA --
GO:0016310 phosphorylation IEA --
GO:0030517 negative regulation of axon extension IBA --
GO:0050775 positive regulation of dendrite morphogenesis IBA --
genes like me logo Genes that share ontologies with CDKL3: view

No data available for SIGNOR curated interactions for CDKL3 Gene

Drugs & Compounds for CDKL3 Gene

(1) Drugs for CDKL3 Gene - From: HMDB

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

(1) Additional Compounds for CDKL3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
genes like me logo Genes that share compounds with CDKL3: view

Transcripts for CDKL3 Gene

mRNA/cDNA for CDKL3 Gene

(37) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(3) Selected AceView cDNA sequences:
(10) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CDKL3 Gene

Cyclin-dependent kinase-like 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for CDKL3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13
SP1: -
SP2: - - - -
SP4: - -

Relevant External Links for CDKL3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CDKL3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CDKL3 Gene

mRNA differential expression in normal tissues according to GTEx for CDKL3 Gene

This gene is overexpressed in Testis (x6.1).

Protein differential expression in normal tissues from HIPED for CDKL3 Gene

This gene is overexpressed in Plasma (31.3), Bone marrow mesenchymal stem cell (19.7), Liver, secretome (10.7), and Pancreatic juice (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CDKL3 Gene

NURSA nuclear receptor signaling pathways regulating expression of CDKL3 Gene:


SOURCE GeneReport for Unigene cluster for CDKL3 Gene:


Evidence on tissue expression from TISSUES for CDKL3 Gene

  • Heart(4.2)
genes like me logo Genes that share expression patterns with CDKL3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDKL3 Gene

Orthologs for CDKL3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CDKL3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CDKL3 34 35
  • 99.83 (n)
(Canis familiaris)
Mammalia CDKL3 34
  • 91.54 (n)
  • 87 (a)
(Bos Taurus)
Mammalia CDKL3 34 35
  • 90.41 (n)
(Mus musculus)
Mammalia Cdkl3 34 16 35
  • 83.14 (n)
(Rattus norvegicus)
Mammalia Cdkl3 34
  • 82.78 (n)
(Monodelphis domestica)
Mammalia CDKL3 35
  • 76 (a)
(Ornithorhynchus anatinus)
Mammalia CDKL3 35
  • 73 (a)
(Anolis carolinensis)
Reptilia CDKL3 35
  • 67 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG7236 35
  • 29 (a)
(Caenorhabditis elegans)
Secernentea Y42A5A.4 35
  • 30 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 58 (a)
Species where no ortholog for CDKL3 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for CDKL3 Gene

Gene Tree for CDKL3 (if available)
Gene Tree for CDKL3 (if available)

Paralogs for CDKL3 Gene

Variants for CDKL3 Gene

Sequence variations from dbSNP and Humsavar for CDKL3 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs367537996 untested 134,371,618(+) GAGGA(C/G)GCTCA upstream-variant-2KB, reference, missense
rs1000025626 -- 134,324,074(+) AGATG(G/T)CAAAT intron-variant
rs1000047754 -- 134,365,872(+) TATCT(A/G)AACCC intron-variant
rs1000050217 -- 134,325,240(+) ATGTT(C/G)CTATT intron-variant
rs1000090740 -- 134,370,530(+) CTGCA(A/C)CCCCA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CDKL3 Gene

Variant ID Type Subtype PubMed ID
esv3606845 CNV loss 21293372
esv3606846 CNV loss 21293372

Variation tolerance for CDKL3 Gene

Residual Variation Intolerance Score: 86% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.16; 39.14% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDKL3 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDKL3 Gene

Disorders for CDKL3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CDKL3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
orofaciodigital syndrome vi
  • joubert syndrome with orofaciodigital defect
joubert syndrome 1
  • joubert syndrome
- elite association - COSMIC cancer census association via MalaCards
Search CDKL3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CDKL3

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 CDKL3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CDKL3 Gene

Publications for CDKL3 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  2. Enhancement of cell proliferation in various mammalian cell lines by gene insertion of a cyclin-dependent kinase homolog. (PMID: 17945021) Jaluria P. … Shiloach J. (BMC Biotechnol. 2007) 3 22 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. NKIAMRE, a novel conserved CDC2-related kinase with features of both mitogen-activated protein kinases and cyclin-dependent kinases. (PMID: 12927787) Yee K.W. … Minden M.D. (Biochem. Biophys. Res. Commun. 2003) 3 22 64
  5. Identification of NKIAMRE, the human homologue to the mitogen-activated protein kinase-/cyclin-dependent kinase-related protein kinase NKIATRE, and its loss in leukemic blasts with chromosome arm 5q deletion. (PMID: 10463609) Midmer M. … Zanke B.W. (Cancer Res. 1999) 2 3 64

Products for CDKL3 Gene

  • Addgene plasmids for CDKL3

Sources for CDKL3 Gene

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