Human Gene CDKL3 (uc003kzf.4)
  Description: Homo sapiens cyclin-dependent kinase-like 3 (CDKL3), transcript variant 1, mRNA.
RefSeq Summary (NM_001113575): 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].
Transcript (Including UTRs)
   Position: hg19 chr5:133,634,115-133,702,765 Size: 68,651 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr5:133,634,342-133,702,214 Size: 67,873 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:133,634,115-133,702,765)mRNA (may differ from genome)Protein (592 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CDKL3_HUMAN
DESCRIPTION: RecName: Full=Cyclin-dependent kinase-like 3; EC=2.7.11.22; AltName: Full=Serine/threonine-protein kinase NKIAMRE;
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
DOMAIN: The [NKR]KIAxRE motif seems to be a cyclin-binding region.
SIMILARITY: Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
SIMILARITY: Contains 1 protein kinase domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CDKL3
CDC HuGE Published Literature: CDKL3

-  MalaCards Disease Associations
  MalaCards Gene Search: CDKL3
Diseases sorted by gene-association score: orofaciodigital syndrome vi (5), meckel syndrome 1 (1), joubert syndrome 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.77 RPKM in Testis
Total median expression: 51.78 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -39.00119-0.328 Picture PostScript Text
3' UTR -37.93227-0.167 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011009 - Kinase-like_dom
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
IPR002290 - Ser/Thr_dual-sp_kinase_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF07714 - Protein tyrosine kinase
PF14531 - Kinase-like

SCOP Domains:
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q8IVW4
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0004693 cyclin-dependent protein serine/threonine kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity

Biological Process:
GO:0006464 cellular protein modification process
GO:0006468 protein phosphorylation
GO:0016310 phosphorylation
GO:0030517 negative regulation of axon extension
GO:0050775 positive regulation of dendrite morphogenesis
GO:0051726 regulation of cell cycle
GO:0097484 dendrite extension

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK294559 - Homo sapiens cDNA FLJ50492 complete cds, highly similar to Cyclin-dependent kinase-like 3 (EC 2.7.11.22).
AK297586 - Homo sapiens cDNA FLJ50582 complete cds, highly similar to Cyclin-dependent kinase-like 3 (EC 2.7.11.22).
AK299305 - Homo sapiens cDNA FLJ50629 complete cds, highly similar to Cyclin-dependent kinase-like 3 (EC 2.7.11.22).
AK294740 - Homo sapiens cDNA FLJ50407 complete cds, highly similar to Cyclin-dependent kinase-like 3 (EC 2.7.11.22).
AK310955 - Homo sapiens cDNA, FLJ17997.
BC041799 - Homo sapiens cyclin-dependent kinase-like 3, mRNA (cDNA clone MGC:41758 IMAGE:5298279), complete cds.
AK301802 - Homo sapiens cDNA FLJ50724 complete cds, highly similar to Cyclin-dependent kinase-like 3 (EC 2.7.11.22).
KJ893868 - Synthetic construct Homo sapiens clone ccsbBroadEn_03262 CDKL3 gene, encodes complete protein.
KJ905469 - Synthetic construct Homo sapiens clone ccsbBroadEn_15062 CDKL3 gene, encodes complete protein.
AF130372 - Homo sapiens serine-threonine protein kinase NKIAMRE (NKIAMRE) mRNA, complete cds.
CU692034 - Synthetic construct Homo sapiens gateway clone IMAGE:100020982 5' read CDKL3 mRNA.

-  Other Names for This Gene
  Alternate Gene Symbols: CDKL3_HUMAN, D3DQA0, D3DQA1, NKIAMRE, NM_001113575, NP_001107047, Q8IVW4, Q9P114
UCSC ID: uc003kzf.4
RefSeq Accession: NM_001113575
Protein: Q8IVW4 (aka CDKL3_HUMAN)
CCDS: CCDS47264.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001113575.1
exon count: 13CDS single in 3' UTR: no RNA size: 2138
ORF size: 1779CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3749.00frame shift in genome: no % Coverage: 99.39
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.