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Aliases for CDK13 Gene

Aliases for CDK13 Gene

  • Cyclin Dependent Kinase 13 2 3 5
  • Cholinesterase-Related Cell Division Controller 2 3 4
  • Cell Division Cycle 2-Like Protein Kinase 5 3 4
  • Cell Division Protein Kinase 13 3 4
  • CDC2-Related Protein Kinase 5 3 4
  • EC 2.7.11.22 4 61
  • CDC2L5 3 4
  • HCDK13 3 4
  • CDC2L 3 4
  • CHED 3 4
  • Cell Division Cycle 2-Like 5 (Cholinesterase-Related Cell Division Controller) 2
  • Cyclin-Dependent Kinase 13 3
  • EC 2.7.11.23 4
  • EC 2.7.11 61
  • KIAA1791 4
  • CHDFIDD 3

External Ids for CDK13 Gene

Previous HGNC Symbols for CDK13 Gene

  • CDC2L5

Previous GeneCards Identifiers for CDK13 Gene

  • GC07P039957
  • GC07P039875

Summaries for CDK13 Gene

Entrez Gene Summary for CDK13 Gene

  • The protein encoded by this gene is a member of the cyclin-dependent serine/threonine protein kinase family. Members of this family are well known for their essential roles as master switches in cell cycle control. The exact function of this protein has not yet been determined, but it may play a role in mRNA processing and may be involved in regulation of hematopoiesis. Alternatively spliced transcript variants have been described.[provided by RefSeq, Dec 2009]

GeneCards Summary for CDK13 Gene

CDK13 (Cyclin Dependent Kinase 13) is a Protein Coding gene. Diseases associated with CDK13 include Intellectual Disability and Alacrima, Achalasia, And Mental Retardation Syndrome. Among its related pathways are Innate Immune System and Gene Expression. GO annotations related to this gene include poly(A) RNA binding and protein kinase activity. An important paralog of this gene is CDK12.

UniProtKB/Swiss-Prot for CDK13 Gene

  • Cyclin-dependent kinase which displays CTD kinase activity and is required for RNA splicing. Has CTD kinase activity by hyperphosphorylating the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit RPB1, thereby acting as a key regulator of transcription elongation. Required for RNA splicing, probably by phosphorylating SRSF1/SF2. Required during hematopoiesis. In case of infection by HIV-1 virus, interacts with HIV-1 Tat protein acetylated at Lys-50 and Lys-51, thereby increasing HIV-1 mRNA splicing and promoting the production of the doubly spliced HIV-1 protein Nef.

Gene Wiki entry for CDK13 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CDK13 Gene

Genomics for CDK13 Gene

Regulatory Elements for CDK13 Gene

Enhancers for CDK13 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
GH07G040015 0.7 ENCODE 20 +66.2 66190 0.6 SOX5 SOX13 PKNOX1 MTA2 ZSCAN4 FEZF1 DPF2 GATA2 HMBOX1 HNF4A CDK13 GC07M039837 PIR43898
GH07G039977 1 Ensembl ENCODE dbSUPER 12.2 +28.5 28465 1.7 GATA3 ZNF146 ZNF133 POU5F1 KDM1A CDK13 LINC00265 PIR43898 GC07M039837
GH07G039979 0.8 Ensembl ENCODE dbSUPER 11.6 +29.7 29719 0.3 CDK13 PIR43898 GC07M039837
GH07G040008 0.6 ENCODE 12.9 +58.7 58657 0.6 CTCF CEBPB EP300 RAD21 HNF4G HNF4A FOS MAFK CDK13 PIR43898 GC07M039837
GH07G040012 0.6 Ensembl 12.9 +63.3 63347 0.9 CTCF ZNF654 CEBPB CEBPG REST RAD21 IKZF1 THRAP3 SMC3 IRF1 CDK13 LINC00265 PIR43898 GC07M039837
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CDK13 on UCSC Golden Path with GeneCards custom track

Promoters for CDK13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000211251 1362 5201 HDGF PKNOX1 FOXA2 MLX AGO1 ZFP64 ARID4B SIN3A DMAP1 ZNF2

Genomic Location for CDK13 Gene

Chromosome:
7
Start:
39,949,838 bp from pter
End:
40,097,134 bp from pter
Size:
147,297 bases
Orientation:
Plus strand

Genomic View for CDK13 Gene

Genes around CDK13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDK13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDK13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CDK13 Gene

Proteins for CDK13 Gene

  • Protein details for CDK13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q14004-CDK13_HUMAN
    Recommended name:
    Cyclin-dependent kinase 13
    Protein Accession:
    Q14004
    Secondary Accessions:
    • Q53G78
    • Q6DKQ9
    • Q75MH4
    • Q75MH5
    • Q96JN4
    • Q9H4A0
    • Q9H4A1
    • Q9UDR4

    Protein attributes for CDK13 Gene

    Size:
    1512 amino acids
    Molecular mass:
    164923 Da
    Quaternary structure:
    • Interacts with CCNL1 and CCNL2 (By similarity). Interacts with CCNK. Interacts with C1QBP. Interacts with HIV-1 Tat.
    SequenceCaution:
    • Sequence=AAA58424.1; Type=Frameshift; Positions=1006; Evidence={ECO:0000305}; Sequence=AAS07490.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CDK13 Gene

    Alternative splice isoforms for CDK13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDK13 Gene

Selected DME Specific Peptides for CDK13 Gene

Q14004:
  • YCHKKNFLHRDIKCSNIL
  • CGSPCPAVWPDVIKLPYFNTMKPKKQYRR
  • NMKEIVTDK
  • ELAQLELISR
  • FLHRDIK
  • EKEGFPITAIREIKIL
  • NEKEGFPITAIREIKILRQL
  • LADFGLA
  • VITLWYRPPELLLG
  • IDVWSCGCILGELF
  • SRSRHSSISP
  • WQDCHELWSKKRRRQ
  • DLPLPPELPGGD
  • FYLVFEYMDHDLMGLLESG
  • RPYTNKVITLWYRPPELLLGEERY
  • IGEGTYG

Post-translational modifications for CDK13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CDK13 Gene

Domains & Families for CDK13 Gene

Gene Families for CDK13 Gene

Protein Domains for CDK13 Gene

Suggested Antigen Peptide Sequences for CDK13 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q14004

UniProtKB/Swiss-Prot:

CDK13_HUMAN :
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
Family:
  • Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.
genes like me logo Genes that share domains with CDK13: view

Function for CDK13 Gene

Molecular function for CDK13 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
ATP + [DNA-directed RNA polymerase] = ADP + [DNA-directed RNA polymerase] phosphate.
UniProtKB/Swiss-Prot CatalyticActivity:
ATP + a protein = ADP + a phosphoprotein.
UniProtKB/Swiss-Prot Function:
Cyclin-dependent kinase which displays CTD kinase activity and is required for RNA splicing. Has CTD kinase activity by hyperphosphorylating the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit RPB1, thereby acting as a key regulator of transcription elongation. Required for RNA splicing, probably by phosphorylating SRSF1/SF2. Required during hematopoiesis. In case of infection by HIV-1 virus, interacts with HIV-1 Tat protein acetylated at Lys-50 and Lys-51, thereby increasing HIV-1 mRNA splicing and promoting the production of the doubly spliced HIV-1 protein Nef.

Enzyme Numbers (IUBMB) for CDK13 Gene

Gene Ontology (GO) - Molecular Function for CDK13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22681889
GO:0004672 protein kinase activity IEA,TAS 1731328
GO:0004674 protein serine/threonine kinase activity IEA --
GO:0004693 cyclin-dependent protein serine/threonine kinase activity IBA --
GO:0005515 protein binding IPI 16721827
genes like me logo Genes that share ontologies with CDK13: view
genes like me logo Genes that share phenotypes with CDK13: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CDK13

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CDK13 Gene

Localization for CDK13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDK13 Gene

Nucleus speckle.

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 CDK13 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 5
golgi apparatus 5

Gene Ontology (GO) - Cellular Components for CDK13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002945 cyclin K-CDK13 complex IPI 22012619
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IDA 22664934
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with CDK13: view

Pathways & Interactions for CDK13 Gene

genes like me logo Genes that share pathways with CDK13: view

Pathways by source for CDK13 Gene

Gene Ontology (GO) - Biological Process for CDK13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000380 alternative mRNA splicing, via spliceosome TAS 16721827
GO:0006368 transcription elongation from RNA polymerase II promoter IBA --
GO:0006397 mRNA processing IEA --
GO:0006468 protein phosphorylation IEA --
GO:0007088 regulation of mitotic nuclear division TAS 1731328
genes like me logo Genes that share ontologies with CDK13: view

No data available for SIGNOR curated interactions for CDK13 Gene

Drugs & Compounds for CDK13 Gene

(1) Drugs for CDK13 Gene - From: HMDB

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

(1) Additional Compounds for CDK13 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • 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 CDK13: view

Transcripts for CDK13 Gene

Unigene Clusters for CDK13 Gene

Cyclin-dependent kinase 13:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CDK13 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b · 17c ^ 18
SP1: -
SP2: - - - -
SP3: - -
SP4:
SP5:
SP6:

Relevant External Links for CDK13 Gene

GeneLoc Exon Structure for
CDK13
ECgene alternative splicing isoforms for
CDK13

Expression for CDK13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CDK13 Gene

Protein differential expression in normal tissues from HIPED for CDK13 Gene

This gene is overexpressed in Tlymphocyte (29.5), Lung (11.6), and Blymphocyte (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CDK13 Gene



NURSA nuclear receptor signaling pathways regulating expression of CDK13 Gene:

CDK13

SOURCE GeneReport for Unigene cluster for CDK13 Gene:

Hs.233552

mRNA Expression by UniProt/SwissProt for CDK13 Gene:

Q14004-CDK13_HUMAN
Tissue specificity: Expressed in fetal brain, liver, muscle and in adult brain. Also expressed in neuroblastoma and glioblastoma tumors.

Evidence on tissue expression from TISSUES for CDK13 Gene

  • Liver(4.3)
  • Nervous system(4.3)
  • Thyroid gland(4.2)
genes like me logo Genes that share expression patterns with CDK13: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDK13 Gene

Orthologs for CDK13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CDK13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CDK13 34 35
  • 99.76 (n)
cow
(Bos Taurus)
Mammalia CDK13 34 35
  • 93.91 (n)
mouse
(Mus musculus)
Mammalia Cdk13 34 16 35
  • 92.58 (n)
dog
(Canis familiaris)
Mammalia CDK13 35
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cdk13 34
  • 91.83 (n)
oppossum
(Monodelphis domestica)
Mammalia CDK13 35
  • 70 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CDK13 35
  • 62 (a)
OneToOne
chicken
(Gallus gallus)
Aves CDK13 34 35
  • 79.42 (n)
lizard
(Anolis carolinensis)
Reptilia CDK13 35
  • 77 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cdk13 34
  • 67.06 (n)
zebrafish
(Danio rerio)
Actinopterygii cdk13 35
  • 53 (a)
OneToMany
wufi49c05 34
fruit fly
(Drosophila melanogaster)
Insecta Cdk12 35
  • 33 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cdk-12 35
  • 38 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CTK1 35
  • 35 (a)
OneToMany
corn
(Zea mays)
Liliopsida Zm.1158 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10559 35
  • 54 (a)
OneToMany
Species where no ortholog for CDK13 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 CDK13 Gene

ENSEMBL:
Gene Tree for CDK13 (if available)
TreeFam:
Gene Tree for CDK13 (if available)

Paralogs for CDK13 Gene

Paralogs for CDK13 Gene

(5) SIMAP similar genes for CDK13 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CDK13: view

Variants for CDK13 Gene

Sequence variations from dbSNP and Humsavar for CDK13 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs878853160 Pathogenic 40,046,007(+) TTCCA(A/G)TATCC reference, missense
rs751856305 Uncertain significance 40,078,734(+) AGCTG(C/T)GCTAG reference, missense
rs1000004443 -- 40,054,517(+) CCTCT(C/G)TCTCC intron-variant, downstream-variant-500B
rs1000039978 -- 40,068,466(+) CAAGG(C/T)GGGCG intron-variant
rs1000056906 -- 39,971,738(+) ATTAG(C/G)CGGAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CDK13 Gene

Variant ID Type Subtype PubMed ID
dgv11289n54 CNV gain 21841781
esv25464 CNV loss 19812545
esv2656647 CNV deletion 23128226
esv2666237 CNV deletion 23128226
esv2669384 CNV deletion 23128226
esv2734303 CNV deletion 23290073
esv2759525 CNV gain 17122850
esv2761319 CNV gain 21179565
esv3377666 CNV insertion 20981092
esv34547 CNV gain 17911159
esv3612919 CNV loss 21293372
esv3612920 CNV gain 21293372
esv3612921 CNV gain 21293372
nsv1015322 CNV gain 25217958
nsv1032278 CNV gain 25217958
nsv464436 CNV gain 19166990
nsv464437 CNV gain 19166990
nsv518849 CNV loss 19592680
nsv521293 CNV loss 19592680
nsv606709 CNV gain 21841781
nsv824080 CNV gain 20364138
nsv971193 CNV duplication 23825009

Variation tolerance for CDK13 Gene

Residual Variation Intolerance Score: 13.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.72; 78.72% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CDK13 Gene

Human Gene Mutation Database (HGMD)
CDK13
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDK13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDK13 Gene

Disorders for CDK13 Gene

MalaCards: The human disease database

(4) MalaCards diseases for CDK13 Gene - From: ClinVar, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
intellectual disability
alacrima, achalasia, and mental retardation syndrome
  • aamr
corneal endothelial dystrophy 1, autosomal dominant
  • congenital hereditary endothelial dystrophy of cornea
neuroblastoma
  • neuroblastoma 1
- elite association - COSMIC cancer census association via MalaCards
Search CDK13 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CDK13

Human Genome Epidemiology (HuGE) Navigator
CDK13
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CDK13
genes like me logo Genes that share disorders with CDK13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CDK13 Gene

Publications for CDK13 Gene

  1. Cloning and antisense oligodeoxynucleotide inhibition of a human homolog of cdc2 required in hematopoiesis. (PMID: 1731328) Lapidot-Lifson Y. … Soreq H. (Proc. Natl. Acad. Sci. U.S.A. 1992) 2 3 4 22 64
  2. The Cyclin K/Cdk12 complex maintains genomic stability via regulation of expression of DNA damage response genes. (PMID: 22012619) Blazek D. … Peterlin B.M. (Genes Dev. 2011) 3 4 64
  3. CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. (PMID: 20952539) Bartkowiak B. … Greenleaf A.L. (Genes Dev. 2010) 3 4 64
  4. Cyclin-dependent kinases: a family portrait. (PMID: 19884882) Malumbres M. … Wolgemuth D.J. (Nat. Cell Biol. 2009) 2 3 64
  5. CDK13, a new potential human immunodeficiency virus type 1 inhibitory factor regulating viral mRNA splicing. (PMID: 18480452) Berro R. … Kashanchi F. (J. Virol. 2008) 3 4 64

Products for CDK13 Gene

Sources for CDK13 Gene

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