CDK9 Gene (Protein Coding)

Cyclin Dependent Kinase 9

GC09P127824
GIFtS:
47
The protein encoded by this gene is a member of the cyclin-dependent protein kinase (CDK) family. CDK family members are highly similar to the gene products of S. cerevisiae cdc28, and S. pombe cdc2, and known as important cell cycle regulators. This kinase was found to be a component of the multiprotein complex TAK/P-TEFb, which is an elongation factor for RNA polymerase II-di... See more...

Aliases for CDK9 Gene

Aliases for CDK9 Gene

  • Cyclin Dependent Kinase 9 2 3 5
  • TAK 2 3 4
  • Tat-Associated Kinase Complex Catalytic Subunit 3 4
  • Cell Division Cycle 2-Like Protein Kinase 4 3 4
  • Cell Division Protein Kinase 9 3 4
  • Cyclin-Dependent Kinase 9 3 4
  • PITALRE 2 3
  • CDC2L4 3 4
  • C-2k 2 3
  • Cyclin-Dependent Kinase 9 (CDC2-Related Kinase) 2
  • Serine/Threonine Protein Kinase PITALRE 3
  • Serine/Threonine-Protein Kinase PITALRE 4
  • CDC2-Related Kinase 3
  • EC 2.7.11.22 4
  • EC 2.7.11.23 4
  • EC 2.7.11 51
  • CTK1 3
  • CDK9 5
  • C-2K 4

External Ids for CDK9 Gene

Previous HGNC Symbols for CDK9 Gene

  • CDC2L4

Previous GeneCards Identifiers for CDK9 Gene

  • GC09P121663
  • GC09P122194
  • GC09P124002
  • GC09P125925
  • GC09P125926
  • GC09P127627
  • GC09P129588
  • GC09P130547
  • GC09P127787
  • GC09P127789
  • GC09P127801
  • GC09P127802
  • GC09P127804
  • GC09P127810
  • GC09P127791
  • GC09P127793
  • GC09P127795
  • GC09P127796
  • GC09P127797
  • GC09P127799
  • GC09P127814

Summaries for CDK9 Gene

Entrez Gene Summary for CDK9 Gene

  • The protein encoded by this gene is a member of the cyclin-dependent protein kinase (CDK) family. CDK family members are highly similar to the gene products of S. cerevisiae cdc28, and S. pombe cdc2, and known as important cell cycle regulators. This kinase was found to be a component of the multiprotein complex TAK/P-TEFb, which is an elongation factor for RNA polymerase II-directed transcription and functions by phosphorylating the C-terminal domain of the largest subunit of RNA polymerase II. This protein forms a complex with and is regulated by its regulatory subunit cyclin T or cyclin K. HIV-1 Tat protein was found to interact with this protein and cyclin T, which suggested a possible involvement of this protein in AIDS. [provided by RefSeq, Jul 2008]

CIViC Summary for CDK9 Gene

GeneCards Summary for CDK9 Gene

CDK9 (Cyclin Dependent Kinase 9) is a Protein Coding gene. Diseases associated with CDK9 include Immune Deficiency Disease and Retinoblastoma. Among its related pathways are Signaling by GPCR and HIV Life Cycle. Gene Ontology (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 CDK13.

UniProtKB/Swiss-Prot Summary for CDK9 Gene

  • Protein kinase involved in the regulation of transcription (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). Member of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor b (P-TEFb), which facilitates the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNAP II) POLR2A, SUPT5H and RDBP (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). This complex is inactive when in the 7SK snRNP complex form (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). Phosphorylates EP300, MYOD1, RPB1/POLR2A and AR and the negative elongation factors DSIF and NELF (PubMed:9857195, PubMed:10912001, PubMed:11112772, PubMed:12037670, PubMed:20081228, PubMed:20980437, PubMed:21127351). Regulates cytokine inducible transcription networks by facilitating promoter recognition of target transcription factors (e.g. TNF-inducible RELA/p65 activation and IL-6-inducible STAT3 signaling) (PubMed:17956865, PubMed:18362169). Promotes RNA synthesis in genetic programs for cell growth, differentiation and viral pathogenesis (PubMed:10393184, PubMed:11112772). P-TEFb is also involved in cotranscriptional histone modification, mRNA processing and mRNA export (PubMed:15564463, PubMed:19575011, PubMed:19844166). Modulates a complex network of chromatin modifications including histone H2B monoubiquitination (H2Bub1), H3 lysine 4 trimethylation (H3K4me3) and H3K36me3; integrates phosphorylation during transcription with chromatin modifications to control co-transcriptional histone mRNA processing (PubMed:15564463, PubMed:19575011, PubMed:19844166). The CDK9/cyclin-K complex has also a kinase activity towards CTD of RNAP II and can substitute for CDK9/cyclin-T P-TEFb in vitro (PubMed:21127351). Replication stress response protein; the CDK9/cyclin-K complex is required for genome integrity maintenance, by promoting cell cycle recovery from replication arrest and limiting single-stranded DNA amount in response to replication stress, thus reducing the breakdown of stalled replication forks and avoiding DNA damage (PubMed:20493174). In addition, probable function in DNA repair of isoform 2 via interaction with KU70/XRCC6 (PubMed:20493174). Promotes cardiac myocyte enlargement (PubMed:20081228). RPB1/POLR2A phosphorylation on 'Ser-2' in CTD activates transcription (PubMed:21127351). AR phosphorylation modulates AR transcription factor promoter selectivity and cell growth. DSIF and NELF phosphorylation promotes transcription by inhibiting their negative effect (PubMed:9857195, PubMed:10912001, PubMed:11112772). The phosphorylation of MYOD1 enhances its transcriptional activity and thus promotes muscle differentiation (PubMed:12037670).

Tocris Summary for CDK9 Gene

  • Cdks (cyclin-dependent kinases) are heteromeric serine/threonine kinases that control progression through the cell cycle in concert with their regulatory subunits, the cyclins. Although there are 12 different cdk genes, only 5 have been shown to directly drive the cell cycle.

Gene Wiki entry for CDK9 Gene

Additional gene information for CDK9 Gene

No data available for PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CDK9 Gene

Genomics for CDK9 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for CDK9 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CDK9 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CDK9

Top Transcription factor binding sites by QIAGEN in the CDK9 gene promoter:
  • ATF
  • p300
  • p53
  • PPAR-gamma1
  • PPAR-gamma2
  • STAT3

Genomic Locations for CDK9 Gene

Latest Assembly
chr9:127,785,679-127,790,792
(GRCh38/hg38)
Size:
5,114 bases
Orientation:
Plus strand

Previous Assembly
chr9:130,548,313-130,553,071
(GRCh37/hg19 by Entrez Gene)
Size:
4,759 bases
Orientation:
Plus strand

chr9:130,547,958-130,553,066
(GRCh37/hg19 by Ensembl)
Size:
5,109 bases
Orientation:
Plus strand

Genomic View for CDK9 Gene

Genes around CDK9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CDK9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CDK9 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for CDK9 Gene

Proteins for CDK9 Gene

Products:

  1. Antibodies for research
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  • Protein details for CDK9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P50750-CDK9_HUMAN
    Recommended name:
    Cyclin-dependent kinase 9
    Protein Accession:
    P50750
    Secondary Accessions:
    • Q5JU24
    • Q5JU25
    • Q5U006
    • Q96TF1

    Protein attributes for CDK9 Gene

    Size:
    372 amino acids
    Molecular mass:
    42778 Da
    Quaternary structure:
    • Component of the super elongation complex (SEC), at least composed of EAF1, EAF2, CDK9, MLLT3/AF9, AFF (AFF1 or AFF4), the P-TEFb complex and ELL (ELL, ELL2 or ELL3). Associates with CCNT1/cyclin-T1, CCNT2/cyclin-T2 (isoform A and isoform B) or CCNK/cyclin-K to form active P-TEFb. P-TEFb forms a complex with AFF4/AF5Q31 and is part of the super elongation complex (SEC). Component of a complex which is composed of at least 5 members: HTATSF1/Tat-SF1, P-TEFb complex, RNA pol II, SUPT5H and NCL/nucleolin. Associates with UBR5 and forms a transcription regulatory complex composed of CDK9, RNAP II, UBR5 and TFIIS/TCEA1 that can stimulate target gene transcription (e.g. gamma fibrinogen/FGG) by recruiting their promoters. Component of the 7SK snRNP inactive complex which is composed of at least 8 members: P-TEFb (composed of CDK9 and CCNT1/cyclin-T1), HEXIM1, HEXIM2, LARP7, BCDIN3, SART3 proteins and 7SK and U6 snRNAs. This inactive 7SK snRNP complex can also interact with NCOR1 and HDAC3, probably to regulate CDK9 acetylation. Release of P-TEFb from P-TEFb/7SK snRNP complex requires both PP2B to transduce calcium Ca(2+) signaling in response to stimuli (e.g. UV or hexamethylene bisacetamide (HMBA)) and PPP1CA to dephosphorylate Thr-186. This released P-TEFb remains inactive in the pre-initiation complex with BRD4 until new Thr-186 phosphorylation occurs after the synthesis of a short RNA (PubMed:10393184, PubMed:10574912, PubMed:12037670, PubMed:11884399, PubMed:12065898, PubMed:12718890, PubMed:15965233, PubMed:16109376, PubMed:17452463, PubMed:17643375, PubMed:18249148, PubMed:18483222, PubMed:18566585, PubMed:20159561, PubMed:20471948, PubMed:21127351, PubMed:21779453, PubMed:22195968, PubMed:9491887). Interacts with BRD4; to target chromatin binding (PubMed:16109376, PubMed:16109377, PubMed:18483222). Interacts with JMJD6 (PubMed:24360279). Interacts with activated nuclear STAT3 and RELA/p65 (PubMed:17956865, PubMed:18362169). Binds to AR and MYOD1 (PubMed:12037670, PubMed:20980437). Forms a complex composed of CDK9, CCNT1/cyclin-T1, EP300 and GATA4 that stimulates hypertrophy in cardiomyocytes (PubMed:20081228). The large PER complex involved in the repression of transcriptional termination is composed of at least PER2, CDK9, DDX5, DHX9, NCBP1 and POLR2A (By similarity). Interacts with HSF1 (PubMed:27189267). Interacts with TBX21 (By similarity). Isoform 3: binds to KU70/XRCC6 (PubMed:20535204). Interacts with WDR43 (By similarity).
    • (Microbial infection) Interacts with the acidic/proline-rich region of HIV-1 and HIV-2 Tat via T-loop region and is thus required for HIV to hijack host transcription machinery during its replication through cooperative binding to viral TAR RNA (PubMed:10958691, PubMed:9491887). Interacts with herpes simplex virus 1 protein ICP22; this interaction inhibits the positive transcription elongation factor b (P-TEFb) (PubMed:23029222).
    Miscellaneous:
    • CDK9 inhibition contributes to the anticancer activity of most CDK inhibitors under clinical investigation (PubMed:18423896 and PubMed:21779453). As a retroviruses target during the hijack of host transcription (e.g. HIV), CDK9 inhibitors might become specific antiretroviral agents (PubMed:18423896). May be a target for cardiac hypertrophy future treatments (PubMed:19757441 and PubMed:18423896). May also be a target in anti-inflammatory therapy in innate immunity and systemic inflammation (PubMed:18728388).

    Three dimensional structures from OCA and Proteopedia for CDK9 Gene

    Alternative splice isoforms for CDK9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CDK9 Gene

Protein Expression for CDK9 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Selected DME Specific Peptides for CDK9 Gene

P50750:
  • DFGLARA
  • VVTLWYR
  • LADFGLA

Post-translational modifications for CDK9 Gene

  • Autophosphorylation at Thr-186, Ser-347, Thr-350, Ser-353, Thr-354 and Ser-357 triggers kinase activity by promoting cyclin and substrate binding (e.g. HIV TAT) upon conformational changes. Thr-186 phosphorylation requires the calcium Ca(2+) signaling pathway, including CaMK1D and calmodulin. This inhibition is relieved by Thr-29 dephosphorylation. However, phosphorylation at Thr-29 is inhibitory within the HIV transcription initiation complex. Phosphorylation at Ser-175 inhibits kinase activity. Can be phosphorylated on either Thr-362 or Thr-363 but not on both simultaneously (PubMed:18566585).
  • Dephosphorylation of Thr-186 by PPM1A and PPM1B blocks CDK9 activity and may lead to CDK9 proteasomal degradation. However, PPP1CA-mediated Thr-186 dephosphorylation is required to release P-TEFb from its inactive P-TEFb/7SK snRNP complex. Dephosphorylation of C-terminus Thr and Ser residues by protein phosphatase-1 (PP1) triggers CDK9 activity, contributing to the activation of HIV-1 transcription.
  • N6-acetylation of Lys-44 promotes kinase activity, whereas acetylation of both Lys-44 and Lys-48 mediated by PCAF/KAT2B and GCN5/KAT2A reduces kinase activity (PubMed:17452463, PubMed:18250157). The acetylated form associates with PML bodies in the nuclear matrix and with the transcriptionally silent HIV-1 genome; deacetylated upon transcription stimulation (PubMed:17452463, PubMed:18250157). Deacetylated by SIRT7, promoting the kinase activity and subsequent 'Ser-2' phosphorylation of the C-terminal domain (CTD) of RNA polymerase II (PubMed:28426094).
  • Polyubiquitinated and thus activated by UBR5. This ubiquitination is promoted by TFIIS/TCEA1 and favors 'Ser-2' phosphorylation of RPB1/POLR2A CTD.
  • Ubiquitination at Lys3, Lys35, Lys68, Lys164, Lys178, Lys294, and Lys345
  • Modification sites at PhosphoSitePlus

Other Protein References for CDK9 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for CDK9 Gene

Gene Families for CDK9 Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • Disease related genes
  • Enzymes
  • Plasma proteins
  • Potential drug targets
  • Predicted intracellular proteins

Protein Domains for CDK9 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CDK9 Gene

GenScript: Design optimal peptide antigens:
  • Cyclin-dependent kinase 9 (B5BU53_HUMAN)
  • Serine/threonine-protein kinase PITALRE (CDK9_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P50750

UniProtKB/Swiss-Prot:

CDK9_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 CDK9: view

Function for CDK9 Gene

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  4. Inhibitory RNAs for research
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  6. Cell Lines for research

Molecular function for CDK9 Gene

UniProtKB/Swiss-Prot Function:
Protein kinase involved in the regulation of transcription (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). Member of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor b (P-TEFb), which facilitates the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNAP II) POLR2A, SUPT5H and RDBP (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). This complex is inactive when in the 7SK snRNP complex form (PubMed:10574912, PubMed:10757782, PubMed:11145967, PubMed:11575923, PubMed:11809800, PubMed:11884399, PubMed:14701750, PubMed:16109376, PubMed:16109377, PubMed:20930849, PubMed:28426094). Phosphorylates EP300, MYOD1, RPB1/POLR2A and AR and the negative elongation factors DSIF and NELF (PubMed:9857195, PubMed:10912001, PubMed:11112772, PubMed:12037670, PubMed:20081228, PubMed:20980437, PubMed:21127351). Regulates cytokine inducible transcription networks by facilitating promoter recognition of target transcription factors (e.g. TNF-inducible RELA/p65 activation and IL-6-inducible STAT3 signaling) (PubMed:17956865, PubMed:18362169). Promotes RNA synthesis in genetic programs for cell growth, differentiation and viral pathogenesis (PubMed:10393184, PubMed:11112772). P-TEFb is also involved in cotranscriptional histone modification, mRNA processing and mRNA export (PubMed:15564463, PubMed:19575011, PubMed:19844166). Modulates a complex network of chromatin modifications including histone H2B monoubiquitination (H2Bub1), H3 lysine 4 trimethylation (H3K4me3) and H3K36me3; integrates phosphorylation during transcription with chromatin modifications to control co-transcriptional histone mRNA processing (PubMed:15564463, PubMed:19575011, PubMed:19844166). The CDK9/cyclin-K complex has also a kinase activity towards CTD of RNAP II and can substitute for CDK9/cyclin-T P-TEFb in vitro (PubMed:21127351). Replication stress response protein; the CDK9/cyclin-K complex is required for genome integrity maintenance, by promoting cell cycle recovery from replication arrest and limiting single-stranded DNA amount in response to replication stress, thus reducing the breakdown of stalled replication forks and avoiding DNA damage (PubMed:20493174). In addition, probable function in DNA repair of isoform 2 via interaction with KU70/XRCC6 (PubMed:20493174). Promotes cardiac myocyte enlargement (PubMed:20081228). RPB1/POLR2A phosphorylation on 'Ser-2' in CTD activates transcription (PubMed:21127351). AR phosphorylation modulates AR transcription factor promoter selectivity and cell growth. DSIF and NELF phosphorylation promotes transcription by inhibiting their negative effect (PubMed:9857195, PubMed:10912001, PubMed:11112772). The phosphorylation of MYOD1 enhances its transcriptional activity and thus promotes muscle differentiation (PubMed:12037670).
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]; Xref=Rhea:RHEA:17989, Rhea:RHEA-COMP:9863, Rhea:RHEA-COMP:11604, ChEBI:CHEBI:15378, ChEBI:CHEBI:29999, ChEBI:CHEBI:30616, ChEBI:CHEBI:83421, ChEBI:CHEBI:456216; EC=2.7.11.22; Evidence={ECO:0000269|PubMed:12037670, ECO:0000269|PubMed:20980437};.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]; Xref=Rhea:RHEA:46608, Rhea:RHEA-COMP:11060, Rhea:RHEA-COMP:11605, ChEBI:CHEBI:15378, ChEBI:CHEBI:30013, ChEBI:CHEBI:30616, ChEBI:CHEBI:61977, ChEBI:CHEBI:456216; EC=2.7.11.22; Evidence={ECO:0000269|PubMed:12037670, ECO:0000269|PubMed:20980437};.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=[DNA-directed RNA polymerase] + ATP = ADP + H(+) + phospho-[DNA-directed RNA polymerase]; Xref=Rhea:RHEA:10216, Rhea:RHEA-COMP:11321, Rhea:RHEA-COMP:11322, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, ChEBI:CHEBI:43176, ChEBI:CHEBI:68546, ChEBI:CHEBI:456216; EC=2.7.11.23; Evidence={ECO:0000269|PubMed:21127351, ECO:0000269|PubMed:28426094};.
UniProtKB/Swiss-Prot Induction:
By replication stress, in chromatin. Probably degraded by the proteasome upon Thr-186 dephosphorylation.
UniProtKB/Swiss-Prot EnzymeRegulation:
Inhibited by CDKI-71, CR8, GPC-286199, AG-024322, flavopiridol (alvocidib), RBG-286147, anilinopyrimidine 32, arylazopyrazole 31b, indirubin 3'-monoxime, meriolin 3,P276-00, olomoucine II, pyrazolotriazine, meriolin, variolin, thiazolyl-pyrimidine, thiazolyl-pyrimidine, indirubin-30-monoxime, ZK 304709, AG-012986, AT7519, R547, RGB-286638, imidazole pyrimidine, EXEL-3700, EXEL-8647, 5,6-dichloro-1-b-ribofur-anosyl-benzimidazole (DRB), P276-00, roscovitine (seliciclib, CYC202) and SNS-032 (BMS-387032). Activation by Thr-186 phosphorylation is calcium Ca(2+) signaling pathway-dependent; actively inactivated by dephosphorylation mediated by PPP1CA, PPM1A and PPM1B. Reversibly repressed by acetylation at Lys-44 and Lys-48.

Enzyme Numbers (IUBMB) for CDK9 Gene

Phenotypes From GWAS Catalog for CDK9 Gene

Gene Ontology (GO) - Molecular Function for CDK9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0000976 transcription regulatory region sequence-specific DNA binding IEA --
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IEA --
GO:0001223 transcription coactivator binding IPI 12037672
GO:0003677 DNA binding IDA 16109376
genes like me logo Genes that share ontologies with CDK9: view
genes like me logo Genes that share phenotypes with CDK9: view

Animal Models for CDK9 Gene

MGI Knock Outs for CDK9:
  • Cdk9 Cdk9<tm1.1(KOMP)Vlcg>

Animal Models for research

  • Taconic Biosciences Mouse Models for CDK9

miRNA for CDK9 Gene

miRTarBase miRNAs that target CDK9

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CDK9

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CDK9 Gene

Localization for CDK9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CDK9 Gene

Nucleus. Cytoplasm. Nucleus, PML body. Note=Accumulates on chromatin in response to replication stress. Complexed with CCNT1 in nuclear speckles, but uncomplexed form in the cytoplasm. The translocation from nucleus to cytoplasm is XPO1/CRM1-dependent. Associates with PML body when acetylated.

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 CDK9 gene
Compartment Confidence
nucleus 5
plasma membrane 2
extracellular 2
cytoskeleton 2
mitochondrion 2
cytosol 2
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (2)
  • Cytoplasmic bodies (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CDK9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IEA --
GO:0008023 transcription elongation factor complex TAS,IDA 22195968
GO:0008024 cyclin/CDK positive transcription elongation factor complex IDA 9499409
genes like me logo Genes that share ontologies with CDK9: view

Pathways & Interactions for CDK9 Gene

genes like me logo Genes that share pathways with CDK9: view

Pathways by source for CDK9 Gene

1 KEGG pathway for CDK9 Gene
2 Qiagen pathways for CDK9 Gene
  • Cell Cycle Control of Chromosomal Replication
  • GADD45 Pathway
1 Cell Signaling Technology pathway for CDK9 Gene
1 GeneTex pathway for CDK9 Gene

SIGNOR curated interactions for CDK9 Gene

Activates:
Inactivates:
Is activated by:
Is inactivated by:
Other effect:

Gene Ontology (GO) - Biological Process for CDK9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006281 DNA repair IEA --
GO:0006282 regulation of DNA repair IDA 20493174
GO:0006366 transcription by RNA polymerase II TAS --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS 10866664
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with CDK9: view

Drugs & Compounds for CDK9 Gene

Products:

  1. Drug products for research

(28) Drugs for CDK9 Gene - From: DrugBank, ApexBio, DGIdb, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Alvocidib Experimental, Investigational Pharma Target, inhibitor Pan-cdk inhibitor, Kinase Inhibitors 65
Olomoucine Experimental Pharma Cyclin-dependent kinase inhibitor 0
seliciclib Investigational Pharma Target, inhibitor Kinase Inhibitors 0
ATP Investigational Nutra 0
Dinaciclib Investigational Pharma inhibitor, Biomarker CDK inhibitor, CDK2 Inhibitors, Kinase Inhibitors 0

(7) Additional Compounds for CDK9 Gene - From: Novoseek, HMDB, and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • 5'-Adenylphosphoric acid
  • Adenosine 5'-diphosphate
  • ADENOSINE-5'-diphosphATE
  • H3ADP
  • 5'-Adenylphosphate
 58-64-0
(R)-CR8
294646-77-8
Arcyriaflavin A
118458-54-1

(5) Tocris Compounds for CDK9 Gene

Compound Action Cas Number
(R)-CR8 Dual cdk1/cdk5 inhibitor; also inhibits CK1 294646-77-8
Arcyriaflavin A Potent cdk4/cyclin D1 and CaM Kinase II inhibitor. Antiviral agent (anti-HCMV) 118458-54-1
AZD 5438 Potent cyclin-dependent kinase (cdk) 1, 2 and 9 inhibitor 602306-29-6
Olomoucine Cyclin-dependent kinase inhibitor 101622-51-9
SU 9516 Potent cdk2 inhibitor 377090-84-1

(12) ApexBio Compounds for CDK9 Gene

Compound Action Cas Number
AT7519 Multi-CDK inhibitor 844442-38-2
AT7519 Hydrochloride Multi-CDK inhibitor 902135-91-5
AT7519 trifluoroacetate CDK/cyclin inhibitor 1431697-85-6
AZD-5438 Potent CDK1/2/9 inhibitor 602306-29-6
CDK9 inhibitor CDK9 inhibitor 1415559-43-1
CDK9 inhibitor 2 1263369-28-3
Dinaciclib (SCH727965) Potent CDK inhibitor 779353-01-4
LDC000067 1073485-20-7
LY2857785 CDK9 inhibitor 1619903-54-6
P276-00 CDK-1/CDK4/CDK9 inhibitor 920113-03-7
PHA-767491 Cdc7/cdk9 inhibitor, potent, ATP-competitive 845714-00-3
SNS-032 (BMS-387032) CDK inhibitor 345627-80-7
genes like me logo Genes that share compounds with CDK9: view

Drug products for research

Transcripts for CDK9 Gene

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  1. CRISPR products for research
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mRNA/cDNA for CDK9 Gene

1 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
5 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CDK9

Alternative Splicing Database (ASD) splice patterns (SP) for CDK9 Gene

No ASD Table

Relevant External Links for CDK9 Gene

GeneLoc Exon Structure for
CDK9

Expression for CDK9 Gene

Products:

  1. Primer products for research
  2. Gene Expression Assays for research

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CDK9 Gene

mRNA expression in normal human tissues for CDK9 Gene
mRNA expression by BioGPS for CDK9 GenemRNA expression by GTEx for CDK9 Gene

Protein differential expression in normal tissues from HIPED for CDK9 Gene

This gene is overexpressed in Breast (24.9) and Lung (15.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CDK9 Gene



Protein tissue co-expression partners for CDK9 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CDK9

SOURCE GeneReport for Unigene cluster for CDK9 Gene:

Hs.150423

mRNA Expression by UniProt/SwissProt for CDK9 Gene:

P50750-CDK9_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for CDK9 Gene

  • Liver(4.6)
  • Kidney(3.4)
  • Skin(3.4)
  • Nervous system(3.4)
  • Intestine(3.3)
  • Muscle(3.3)
  • Heart(3.3)
  • Bone marrow(3.3)
  • Lymph node(3.2)
  • Lung(3.2)
  • Pancreas(3.1)
  • Thyroid gland(3)
  • Stomach(2.9)
  • Adrenal gland(2.8)
  • Spleen(2.7)
  • Blood(2.7)
  • Gall bladder(2.5)
genes like me logo Genes that share expression patterns with CDK9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CDK9 Gene

Orthologs for CDK9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CDK9 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia CDK9 30 31
  • 99.46 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia CDK9 30 31
  • 93.64 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia CDK9 30 31
  • 92.03 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Cdk9 30
  • 89.7 (n)
Mouse
(Mus musculus)
 Mammalia Cdk9 30 17 31
  • 89.25 (n)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia CDK9 31
  • 86 (a)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia CDK9 31
  • 71 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves CDK9 30 31
  • 82.97 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia CDK9 31
  • 90 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia cdk9 30
  • 79.03 (n)
African clawed frog
(Xenopus laevis)
 Amphibia cdk9-prov 30
Zebrafish
(Danio rerio)
 Actinopterygii cdk9 30 31
  • 79.42 (n)
 OneToOne
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP008541 30
  • 70.58 (n)
Fruit Fly
(Drosophila melanogaster)
 Insecta Cdk9 30 31 32
  • 68.25 (n)
 OneToOne
Worm
(Caenorhabditis elegans)
 Secernentea cdk-9 30 31
  • 55.15 (n)
 OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes CTK1 31
  • 23 (a)
 OneToMany
SGV1 33
Rice
(Oryza sativa)
 Liliopsida Os.14473 30
Sea Squirt
(Ciona savignyi)
 Ascidiacea CSA.2443 31
  • 74 (a)
 OneToOne
Fission Yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes cdk9 30
  • 49.53 (n)
Species where no ortholog for CDK9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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 CDK9 Gene

ENSEMBL:
Gene Tree for CDK9 (if available)
TreeFam:
Gene Tree for CDK9 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CDK9: view image

Paralogs for CDK9 Gene

Variants for CDK9 Gene

Products:

  1. SNP Genotyping and Copy Number Assays for research

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CDK9 Gene

SNP ID Clinical significance and condition Chr 09 pos Variation AA Info Type
rs3217739 Benign: not provided 127,787,511(+) C/T
NM_001261.4(CDK9):c.175-7C>T 		INTRON
rs55640715 - p.Phe59Leu
rs767418586 - p.Arg225Cys
VAR_013456 - p.Gly231Ala

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CDK9 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for CDK9 Gene

Variant ID Type Subtype PubMed ID
dgv12879n54 CNV loss 21841781
dgv12880n54 CNV loss 21841781
esv3891727 CNV gain 25118596
nsv466573 CNV loss 19166990
nsv466575 CNV loss 19166990
nsv466576 CNV loss 19166990
nsv471323 CNV loss 18288195
nsv615371 CNV loss 21841781
nsv615373 CNV loss 21841781
nsv615374 CNV loss 21841781
nsv825094 CNV gain 20364138
nsv825095 CNV gain 20364138

Variation tolerance for CDK9 Gene

Residual Variation Intolerance Score: 10.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.33; 7.33% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CDK9 Gene

Human Gene Mutation Database (HGMD)
CDK9
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CDK9

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CDK9 Gene

Disorders for CDK9 Gene

MalaCards: The human disease database

(6) MalaCards diseases for CDK9 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
immune deficiency disease
  • primary immunodeficiency disease
retinoblastoma
  • rb1
human immunodeficiency virus type 1
  • human immunodeficiency virus type 1, susceptibility to
nut midline carcinoma
  • nuclear protein in testis midline carcinoma
leukemia, chronic lymphocytic
  • cll
- elite association - COSMIC cancer census association via MalaCards
Search CDK9 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

CDK9_HUMAN
  • Note=Chronic activation of CDK9 causes cardiac myocyte enlargement leading to cardiac hypertrophy and confers predisposition to heart failure.

Additional Disease Information for CDK9

Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with CDK9: view

No data available for Genatlas for CDK9 Gene

Publications for CDK9 Gene

  1. PITALRE, a nuclear CDC2-related protein kinase that phosphorylates the retinoblastoma protein in vitro. (PMID: 8170997) Graña X … Giordano A (Proceedings of the National Academy of Sciences of the United States of America 1994) 2 3 4 23
  2. Cyclin-dependent kinase-9 is a component of the p300/GATA4 complex required for phenylephrine-induced hypertrophy in cardiomyocytes. (PMID: 20081228) Sunagawa Y … Hasegawa K (The Journal of biological chemistry 2010) 3 4 23
  3. Insights into the function of the human P-TEFb component CDK9 in the regulation of chromatin modifications and co-transcriptional mRNA processing. (PMID: 19844166) Pirngruber J … Johnsen SA (Cell cycle (Georgetown, Tex.) 2009) 3 4 23
  4. CDK9 directs H2B monoubiquitination and controls replication-dependent histone mRNA 3'-end processing. (PMID: 19575011) Pirngruber J … Johnsen SA (EMBO reports 2009) 3 4 23
  5. PP2B and PP1alpha cooperatively disrupt 7SK snRNP to release P-TEFb for transcription in response to Ca2+ signaling. (PMID: 18483222) Chen R … Zhou Q (Genes & development 2008) 3 4 23

ExternalLinks

View latest publications for CDK9 gene in Mastermind

Products for CDK9 Gene

  • Addgene plasmids for CDK9
  • ProSci Antibodies for CDK9