EuRBPDB

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TCGA tumor abbreviations
  • ACCAdrenocortical carcinoma
  • BLCABladder Urothelial Carcinoma
  • BRCABreast invasive carcinoma
  • CESCCervical squamous cell carcinoma and endocervical adenocarcinoma
  • CHOLCholangio carcinoma
  • COADColon adenocarcinoma
  • DLBCLymphoid Neoplasm Diffuse Large B-cell Lymphoma
  • ESCAEsophageal carcinoma
  • GBMGlioblastoma multiforme
  • HNSCHead and Neck squamous cell carcinoma
  • KICHKidney Chromophobe
  • KIRCKidney renal clear cell carcinoma
  • KIRPKidney renal papillary cell carcinoma
  • LAMLAcute Myeloid Leukemia
  • LGGBrain Lower Grade Glioma
  • LIHCLiver hepatocellular carcinoma
  • LUADLung adenocarcinoma
  • LUSCLung squamous cell carcinoma
  • MESOMesothelioma
  • OVOvarian serous cystadenocarcinoma
  • PAADPancreatic adenocarcinoma
  • PCPGPheochromocytoma and Paraganglioma
  • PRADProstate adenocarcinoma
  • READRectum adenocarcinoma
  • SARCSarcoma
  • SKCMSkin Cutaneous Melanoma
  • STADStomach adenocarcinoma
  • TGCTThyroid carcinoma
  • THCAThyroid carcinoma
  • THYMThymoma
  • UCECUterine Corpus Endometrial Carcinoma
  • UCSUterine Carcinosarcoma
  • UVMUveal Melanoma

Note: Click here to get the extension of tumor abbreviations.


  • Cancer Related Information
  • Basic Information

Cancer associated literatures
PIDTitleArticle TimeAuthorDoi
15753651Cdk9 regulates neural differentiation and its expression correlates with the differentiation grade of neuroblastoma and PNET tumors.Cancer Biol Ther2005 MarDe Falco G-
28940993miR-206 inhibits the growth of hepatocellular carcinoma cells via targeting CDK9.Cancer Med2017 OctPang Cdoi: 10.1002/cam4.1188
25281924MicroRNA-874 inhibits cell proliferation and induces apoptosis in human breast cancer by targeting CDK9.FEBS Lett2014 Dec 20Wang Ldoi: 10.1016/j.febslet.2014.09.035
24688048A novel CDK9 inhibitor shows potent antitumor efficacy in preclinical hematologic tumor models.Mol Cancer Ther2014 JunYin Tdoi: 10.1158/1535-7163.MCT-13-0849
20980437CDK9 regulates AR promoter selectivity and cell growth through serine 81 phosphorylation.Mol Endocrinol2010 DecGordon Vdoi: 10.1210/me.2010-0238
17998334Parvin-beta inhibits breast cancer tumorigenicity and promotes CDK9-mediated peroxisome proliferator-activated receptor gamma 1 phosphorylation.Mol Cell Biol2008 JanJohnstone CN-
22391209Flavopiridol induces phosphorylation of AKT in a human glioblastoma cell line, in contrast to siRNA-mediated silencing of Cdk9: Implications for drug design and development.Cell Cycle2012 Mar 15Caracciolo Vdoi: 10.4161/cc.11.6.19663
27486754Inhibition of cyclin dependent kinase 9 by dinaciclib suppresses cyclin B1 expression and tumor growth in triple negative breast cancer.Oncotarget2016 Aug 30Rajput Sdoi: 10.18632/oncotarget.10870.
28722178CDK9: A key player in cancer and other diseases.J Cell Biochem2018 FebFranco LCdoi: 10.1002/jcb.26293
28701053MicroRNA-613 inhibits the progression of gastric cancer by targeting CDK9.Artif Cells Nanomed Biotechnol2018 AugLu Ydoi: 10.1080/21691401.2017.1351983

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
BLCAchr9127788216Splice_RegionnovelI145I0.38
BLCAchr9127787600Missense_Mutationrs371317161R86Q0.34
BLCAchr9127787600Missense_Mutationrs371317161R86Q0.32
BLCAchr9127789376Missense_MutationnovelD318N0.72
BLCAchr9127786771Missense_MutationnovelE55Q0.67
BLCAchr9127788278Missense_MutationnovelA166V0.58
BLCAchr9127787586Missense_MutationnovelL81F0.13
BLCAchr9127789529Missense_MutationnovelE369Q0.09
BRCAchr91277896983'UTRnovel0.33
BRCAchr9127788017SilentNAG112G0.15
CESCchr91277896213'UTRnovel0.1
COADchr9127789217Missense_MutationNAL265V0.19
COADchr9127789205SilentNAL261L0.45
COADchr9127788385Missense_Mutationrs770506343G202R0.26
COADchr9127789275Missense_MutationNAR284H0.4
COADchr9127789274Missense_Mutationrs370938433R284C0.46
COADchr9127789423Silentrs150060991T333T0.23
GBMchr9127789451Missense_MutationnovelR343S0.06
GBMchr9127789452Frame_Shift_DelnovelR343Pfs*480.23
GBMchr9127787541SilentnovelE66E0.45
HNSCchr9127788654Missense_Mutationrs11554104A239T0.26
HNSCchr9127789253Missense_MutationnovelD277N0.27
HNSCchr9127786238Missense_MutationnovelF30L0.16
LIHCchr9127789248Missense_MutationnovelV275A0.42
LIHCchr91277895473'UTRnovel0.39
LIHCchr9127788664Missense_MutationNAS242I0.74
LIHCchr9127789344Missense_MutationNAD307V0.46
LIHCchr9127788664Missense_MutationNAS242I0.24
LIHCchr9127788230Missense_MutationnovelM150T0.35
LUADchr9127788300SilentNAA173A0.23
LUADchr9127788381Missense_MutationnovelL200F0.32
LUADchr9127789338Missense_MutationNAD305A0.21
LUADchr9127789249SilentNAV275V0.08
LUADchr91277895453'UTRnovel0.12
MESOchr91277860935'UTRnovel0.26
OVchr9127789212Missense_MutationnovelE263A0.18
OVchr9127789279SilentnovelD285D0.14
PAADchr9127789331Missense_MutationNAR303C0.24
READchr9127789301Missense_MutationNAD293Y0.32
READchr9127789497Missense_Mutationrs753758776R358H0.17
SKCMchr9127787521Missense_MutationNAP60S0.18
SKCMchr9127788369SilentNAP196P0.25
SKCMchr9127788284Missense_MutationNAF168S0.12
SKCMchr9127787990Silentrs573934552F103F0.81
SKCMchr9127789426Silentrs142704308S334S0.41
SKCMchr9127789346Missense_MutationnovelD308Y0.63
STADchr9127789427Missense_MutationNAM335V0.36
STADchr91277861195'UTRnovel0.23
STADchr9127788274Missense_MutationNAL165M0.11
STADchr9127789533Missense_MutationNAR370H0.07
THCAchr9127788235Missense_MutationnovelA152S0.13
UCECchr91277897003'UTRnovel0.55
UCECchr9127789241Missense_Mutationrs376244572R273W0.49
UCECchr9127786173Missense_MutationnovelE9K0.18
UCECchr9127788371Missense_MutationnovelP197L0.8
UCECchr91277899873'UTRnovel0.12
UCECchr9127787536Missense_MutationnovelR65W0.35
UCECchr9127789480Missense_MutationnovelQ352H0.16
UCECchr91277897463'UTRnovel0.2
UCECchr9127788597Missense_MutationnovelA220T0.3
UCECchr91277896993'UTRnovel0.29
UCECchr91277898323'UTRnovel0.27
UCECchr91277895473'UTRnovel0.34
UCECchr91277898323'UTRnovel0.31
UCECchr9127789331Missense_MutationNAR303C0.33
UCECchr9127788046Missense_MutationnovelT122M0.33
UCECchr9127788216Splice_RegionnovelI145I0.56
UCECchr9127788032SilentnovelV117V0.44
UCECchr9127788559Frame_Shift_Insrs755440676I210Hfs*20.47
UCECchr9127787600Missense_Mutationrs371317161R86Q0.39
UCECchr9127789348Silentrs201136315D308D0.38
UCECchr9127787962Missense_MutationNAR94H0.43
UCECchr9127789438SilentnovelY338Y0.32
UCECchr9127789342Silentrs141597514S306S0.21
UCECchr9127789300Silentrs574082027I292I0.35
UCECchr91277895523'UTRrs3770004140.36

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
CHOLDEL0.41670.067545
LAMLDEL0.00520.24147
LGGAMP0.05850.21332
LIHCDEL0.24590.12467
PRADAMP0.08330.059049
THCADEL0.04010.24038
THYMDEL0.01630.022012
UCSDEL0.55360.089783

Survival Analysis
CancerP-value Q-value
THYM0.0037

Kaplan-Meier Survival Analysis

KIRC0.00011

Kaplan-Meier Survival Analysis

SARC0.00097

Kaplan-Meier Survival Analysis

MESO0.05

Kaplan-Meier Survival Analysis

ACC0.017

Kaplan-Meier Survival Analysis

LUSC0.018

Kaplan-Meier Survival Analysis

ESCA0.0014

Kaplan-Meier Survival Analysis

COAD0.0014

Kaplan-Meier Survival Analysis

PAAD0.00067

Kaplan-Meier Survival Analysis

BLCA0.016

Kaplan-Meier Survival Analysis

READ0.027

Kaplan-Meier Survival Analysis

LAML0.017

Kaplan-Meier Survival Analysis

UCEC0.034

Kaplan-Meier Survival Analysis

THCA0.027

Kaplan-Meier Survival Analysis

UVM0.018

Kaplan-Meier Survival Analysis

OV0.01

Kaplan-Meier Survival Analysis

Drugs

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Input Cell Line :


Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • PPI
  • Gene Ontology
Description
Ensembl ID
ENSG00000136807 (Gene tree)
Gene ID
1025
Gene Symbol
CDK9
Alias
PITALRE|C-2k|TAK|CDC2L4
Full Name
cyclin dependent kinase 9
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Plus strand
Length
5,109 bases
Position
chr9:127,785,679-127,790,787
Accession
1780
RBP type
non-canonical RBP
Summary
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]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & HEK2932019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & Hela2018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & MCF72018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & U2OS2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
29563491RNA cytosine methylation and methyltransferases mediate chromatin organization and 5-azacytidine response and resistance in leukaemia.Nat Commun2018 Mar 21Cheng JXdoi: 10.1038/s41467-018-03513-4.
14585207Additive activity between the trans-activation response RNA-binding protein, TRBP2, and cyclin T1 on HIV type 1 expression and viral production in murine cells.AIDS Res Hum Retroviruses2003 SepBattisti PL-
19941902High yield expression and purification of HIV-1 Tat1-72 for structural studies.J Virol Methods2010 MarShojania Sdoi: 10.1016/j.jviromet.2009.11.021
30637779Long-Read RNA Sequencing Identifies Alternative Splice Variants in Hepatocellular Carcinoma and Tumor-Specific Isoforms.Hepatology2019 Jan 13Chen Hdoi: 10.1002/hep.30500
16280076 light on transcription initiation.Retrovirology2005 Nov 9Brady J-
15677471The STAT3 transcription factor is a target for the Myc and riboblastoma proteins on the Cdc25A promoter.J Biol Chem2005 Apr 22Barre B-
10545121HIV-1 tat transcriptional activity is regulated by acetylation.EMBO J1999 Nov 1Kiernan RE-
10550206Tackling Tat.J Mol Biol1999 Oct 22Karn J-
10082552Tat activates human immunodeficiency virus type 1 transcriptional elongation independent of TFIIH kinase.Mol Cell Biol1999 AprChen D-
9491887A novel CDK9-associated C-type cyclin interacts directly with HIV-1 Tat and mediates its high-affinity, loop-specific binding to TAR RNA.Cell1998 Feb 20Wei P-
10467404Transcriptional regulation by targeted recruitment of cyclin-dependent CDK9 kinase in vivo.Oncogene1999 Aug 12Majello B-
12438622RNA interference directed against viral and cellular targets inhibits human immunodeficiency Virus Type 1 replication.J Virol2002 DecSurabhi RM-
11572868TFIIH inhibits CDK9 phosphorylation during human immunodeficiency virus type 1 transcription.J Biol Chem2001 Nov 30Zhou M-
10958691CDK9 autophosphorylation regulates high-affinity binding of the human immunodeficiency virus type 1 tat-P-TEFb complex to TAR RNA.Mol Cell Biol2000 SepGarber ME-
15528190Cyclin-dependent kinase 9 is required for tumor necrosis factor-alpha-stimulated matrix metalloproteinase-9 expression in human lung adenocarcinoma cells.J Biol Chem2005 Jan 14Shan B-
19136461Binding to DNA of the RNA-polymerase II C-terminal domain allows discrimination between Cdk7 and Cdk9 phosphorylation.Nucleic Acids Res2009 MarLolli Gdoi: 10.1093/nar/gkn1061
18223296The bromodomain protein Brd4 stimulates G1 gene transcription and promotes progression to S phase.J Biol Chem2008 Apr 4Mochizuki Kdoi: 10.1074/jbc.M707603200
17956865The functional role of an interleukin 6-inducible CDK9.STAT3 complex in human gamma-fibrinogen gene expression.J Biol Chem2007 Dec 21Hou T-
22113271Two-step cross-linking for analysis of protein-chromatin interactions.Methods Mol Biol2012Tian Bdoi: 10.1007/978-1-61779-376-9_7.
21900162RelA Ser276 phosphorylation-coupled Lys310 acetylation controls transcriptional elongation of inflammatory cytokines in respiratory syncytial virus infection.J Virol2011 NovBrasier ARdoi: 10.1128/JVI.05360-11
21763498Reciprocal regulation of human immunodeficiency virus-1 gene expression and replication by heat shock proteins 40 and 70.J Mol Biol2011 Jul 29Kumar Mdoi: 10.1016/j.jmb.2011.04.005.
24985467A single point mutation in cyclin T1 eliminates binding to Hexim1, Cdk9 and RNA but not to AFF4 and enforces repression of HIV transcription.Retrovirology2014 Jul 1Kuzmina Adoi: 10.1186/1742-4690-11-51.
28077651BRD4 Couples NF-kB/RelA with Airway Inflammation and the IRF-RIG-I Amplification Loop in Respiratory Syncytial Virus Infection.J Virol2017 Feb 28Tian Bdoi: 10.1128/JVI.00007-17
28940993miR-206 inhibits the growth of hepatocellular carcinoma cells via targeting CDK9.Cancer Med2017 OctPang Cdoi: 10.1002/cam4.1188
29792216HIV-1 Tat phosphorylation on Ser-16 residue modulates HIV-1 transcription.Retrovirology2018 May 23Ivanov Adoi: 10.1186/s12977-018-0422-5.
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000373264CDK9-2012463-ENSP00000362361372 (aa)-P50750
ENST00000480353CDK9-203706--- (aa)--
ENST00000498339CDK9-205458--- (aa)--
ENST00000421939CDK9-202702-ENSP00000395872194 (aa)-X6RE90
ENST00000491521CDK9-204510--- (aa)--
Gene Model
Click here to download ENSG00000136807's gene model file
Pathways
Pathway IDPathway NameSource
hsa05202Transcriptional misregulation in cancerKEGG
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000136807's network

* RBP PPI network refers to all genes directly bind to RBP
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000307cyclin-dependent protein kinase holoenzyme complex21873635.IBAComponent
GO:0000790nuclear chromatin21873635.IBAComponent
GO:0000978RNA polymerase II proximal promoter sequence-specific DNA binding-IEAFunction
GO:0001223transcription coactivator binding12037672.IPIFunction
GO:0003677DNA binding16109376.IDAFunction
GO:0003682chromatin binding-ISSFunction
GO:0004672protein kinase activity8170997.TASFunction
GO:0004674protein serine/threonine kinase activity-TASFunction
GO:0004693cyclin-dependent protein serine/threonine kinase activity21873635.IBAFunction
GO:0004693cyclin-dependent protein serine/threonine kinase activity12037670.IDAFunction
GO:0005515protein binding9499409.12832472.14580347.15107825.15286705.15563843.15713662.16331689.17690245.18281698.18483487.18566585.19387490.19914168.20153263.20535204.20562857.20930849.21533037.21729782.22190034.22939624.22959624.23455922.23602568.24189400.24360279.25036637.25470060.26659056.28330616.IPIFunction
GO:0005524ATP binding-IEAFunction
GO:0005634nucleus21873635.IBAComponent
GO:0005654nucleoplasm-IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005694chromosome21873635.IBAComponent
GO:0006281DNA repair-IEAProcess
GO:0006282regulation of DNA repair20493174.IDAProcess
GO:0006366transcription by RNA polymerase II-TASProcess
GO:0006367transcription initiation from RNA polymerase II promoter10866664.TASProcess
GO:0006368transcription elongation from RNA polymerase II promoter21873635.IBAProcess
GO:0006368transcription elongation from RNA polymerase II promoter-TASProcess
GO:0006468protein phosphorylation21873635.IBAProcess
GO:0006468protein phosphorylation16109376.IDAProcess
GO:0007346regulation of mitotic cell cycle19575011.IMPProcess
GO:0008023transcription elongation factor complex22195968.IDAComponent
GO:0008024cyclin/CDK positive transcription elongation factor complex21873635.IBAComponent
GO:0008024cyclin/CDK positive transcription elongation factor complex9499409.15905409.IDAComponent
GO:0008134transcription factor binding21873635.IBAFunction
GO:0008283cell proliferation8170997.TASProcess
GO:0008353RNA polymerase II CTD heptapeptide repeat kinase activity21873635.IBAFunction
GO:0008353RNA polymerase II CTD heptapeptide repeat kinase activity9499409.12721286.IDAFunction
GO:0010613positive regulation of cardiac muscle hypertrophy-IEAProcess
GO:0016020membrane19946888.HDAComponent
GO:0016301kinase activity-TASFunction
GO:0016605PML body18250157.IDAComponent
GO:0019901protein kinase binding-IEAFunction
GO:0030332cyclin binding21873635.IBAFunction
GO:0031056regulation of histone modification19844166.IDAProcess
GO:0031297replication fork processing20930849.IDAProcess
GO:0032968positive regulation of transcription elongation from RNA polymerase II promoter21873635.IBAProcess
GO:0033129positive regulation of histone phosphorylation19575011.IMPProcess
GO:0036464cytoplasmic ribonucleoprotein granule-IDAComponent
GO:0042493response to drug-IEAProcess
GO:0042795snRNA transcription by RNA polymerase II-TASProcess
GO:0044212transcription regulatory region DNA binding21873635.IBAFunction
GO:0045944positive regulation of transcription by RNA polymerase II21873635.IBAProcess
GO:0045944positive regulation of transcription by RNA polymerase II19575011.IMPProcess
GO:0045944positive regulation of transcription by RNA polymerase II-TASProcess
GO:0050434positive regulation of viral transcription-TASProcess
GO:0051147regulation of muscle cell differentiation12037670.IMPProcess
GO:0070816phosphorylation of RNA polymerase II C-terminal domain21873635.IBAProcess
GO:0071157negative regulation of cell cycle arrest20930849.IDAProcess
GO:0071345cellular response to cytokine stimulus17956865.IDAProcess
GO:00973227SK snRNA binding11713533.IDAFunction
GO:1900364negative regulation of mRNA polyadenylation19575011.IMPProcess
GO:1903839positive regulation of mRNA 3'-UTR binding19575011.IDAProcess
GO:2001168positive regulation of histone H2B ubiquitination19575011.IMPProcess
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