Human Gene CDKL3 (uc011cxo.1)
  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 chr5:133,621,932-133,706,735 Size: 84,804 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr5:133,622,064-133,644,414 Size: 22,351 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:133,621,932-133,706,735)mRNA (may differ from genome)Protein (363 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMalacardsMGIPubMed
UniProtKB

-  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 -79.84304-0.263 Picture PostScript Text
3' UTR -28.00132-0.212 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
  ModBase Predicted Comparative 3D Structure on B4DGS2
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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:0016301 kinase activity

Biological Process:
GO:0016310 phosphorylation


-  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: AK294740, B4DGS2, B4DGS2_HUMAN
UCSC ID: uc011cxo.1
RefSeq Accession: NM_001113575
Protein: B4DGS2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK294740.1
exon count: 10CDS single in 3' UTR: no RNA size: 1417
ORF size: 1092CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1913.00frame shift in genome: no % Coverage: 100.00
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.