Cluster composition

Functions

Category	Name	IntersectionWithQuery	PValue	GenesInTerm	GenesInQuery	GenesInTermInQuery	ID
GeneOntologyMolecularFunction	RNA-dependent RNA polymerase activity	POLR2A POLR2B	1.00e-05	3	37	2	GO:0003968
GeneOntologyMolecularFunction	RNA polymerase II activity	POLR2A POLR2B	1.82e-04	11	37	2	GO:0001055
GeneOntologyMolecularFunction	DNA-directed 5'-3' RNA polymerase activity	POLR2A POLR2B	1.41e-03	30	37	2	GO:0003899
GeneOntologyMolecularFunction	5'-3' RNA polymerase activity	POLR2A POLR2B	1.60e-03	32	37	2	GO:0034062
GeneOntologyMolecularFunction	RNA polymerase activity	POLR2A POLR2B	1.60e-03	32	37	2	GO:0097747
GeneOntologyBiologicalProcess	RNA-templated transcription	POLR2A POLR2B	8.88e-06	3	36	2	GO:0001172
GeneOntologyCellularComponent	RNA polymerase II, core complex	POLR2A POLR2B	3.86e-04	17	36	2	GO:0005665
GeneOntologyCellularComponent	RNA polymerase II, holoenzyme	TAF3 POLR2A POLR2B	4.81e-04	89	36	3	GO:0016591
GeneOntologyCellularComponent	nuclear DNA-directed RNA polymerase complex	TAF3 POLR2A POLR2B	9.64e-04	113	36	3	GO:0055029
GeneOntologyCellularComponent	DNA-directed RNA polymerase complex	TAF3 POLR2A POLR2B	1.04e-03	116	36	3	GO:0000428
GeneOntologyCellularComponent	RNA polymerase complex	TAF3 POLR2A POLR2B	1.12e-03	119	36	3	GO:0030880
Domain	MFS	SLC43A2 SLC2A13 MFSD10	9.04e-04	108	33	3	PS50850
Domain	MFS_dom	SLC43A2 SLC2A13 MFSD10	1.68e-03	134	33	3	IPR020846
Domain	PDZ	APBA3 RADIL CNKSR3	1.95e-03	141	33	3	PF00595
Domain	PDZ	APBA3 RADIL CNKSR3	2.23e-03	148	33	3	SM00228
Domain	-	APBA3 RADIL CNKSR3	2.32e-03	150	33	3	2.30.42.10
Domain	PDZ	APBA3 RADIL CNKSR3	2.37e-03	151	33	3	PS50106
Domain	PDZ	APBA3 RADIL CNKSR3	2.41e-03	152	33	3	IPR001478
Domain	MFS	SLC43A2 MFSD10	8.15e-03	77	33	2	IPR011701
Domain	MFS_1	SLC43A2 MFSD10	8.15e-03	77	33	2	PF07690
Pathway	REACTOME_HIV_TRANSCRIPTION_INITIATION	TAF3 POLR2A POLR2B	6.69e-05	47	24	3	M29568
Pathway	REACTOME_RNA_POLYMERASE_II_PROMOTER_ESCAPE	TAF3 POLR2A POLR2B	7.13e-05	48	24	3	MM15424
Pathway	REACTOME_HIV_LIFE_CYCLE	TAF3 VPS4B POLR2A POLR2B	1.08e-04	149	24	4	M4076
Pathway	REACTOME_TRANSCRIPTION_OF_THE_HIV_GENOME	TAF3 POLR2A POLR2B	2.20e-04	70	24	3	M27008
Pathway	REACTOME_RNA_POLYMERASE_II_PRE_TRANSCRIPTION_EVENTS	TAF3 POLR2A POLR2B	3.39e-04	81	24	3	M865
Pathway	REACTOME_RNA_POLYMERASE_II_PRE_TRANSCRIPTION_EVENTS	TAF3 POLR2A POLR2B	3.64e-04	83	24	3	MM15314
Pathway	REACTOME_FGFR2_ALTERNATIVE_SPLICING	POLR2A POLR2B	4.18e-04	18	24	2	MM15334
Pathway	REACTOME_SIGNALING_BY_FGFR2_IIIA_TM	POLR2A POLR2B	4.67e-04	19	24	2	M27739
Pathway	REACTOME_HIV_INFECTION	TAF3 VPS4B POLR2A POLR2B	5.77e-04	231	24	4	M12469
Pathway	REACTOME_ABORTIVE_ELONGATION_OF_HIV_1_TRANSCRIPT_IN_THE_ABSENCE_OF_TAT	POLR2A POLR2B	6.88e-04	23	24	2	M3630
Pathway	REACTOME_MICRORNA_MIRNA_BIOGENESIS	POLR2A POLR2B	8.14e-04	25	24	2	M712
Pathway	REACTOME_FGFR2_ALTERNATIVE_SPLICING	POLR2A POLR2B	9.50e-04	27	24	2	M27632
Pathway	KEGG_RNA_POLYMERASE	POLR2A POLR2B	1.10e-03	29	24	2	M1724
Pathway	REACTOME_PIWI_INTERACTING_RNA_PIRNA_BIOGENESIS	POLR2A POLR2B	1.10e-03	29	24	2	M27462
Pathway	REACTOME_MRNA_CAPPING	POLR2A POLR2B	1.10e-03	29	24	2	M745
Pathway	REACTOME_MRNA_CAPPING	POLR2A POLR2B	1.10e-03	29	24	2	MM15409
Pathway	KEGG_MEDICUS_REFERENCE_TRANSCRIPTION_COUPLED_NER	POLR2A POLR2B	1.25e-03	31	24	2	M47825
Pathway	REACTOME_FGFR2_MUTANT_RECEPTOR_ACTIVATION	POLR2A POLR2B	1.42e-03	33	24	2	M27049
Pathway	REACTOME_FORMATION_OF_THE_EARLY_ELONGATION_COMPLEX	POLR2A POLR2B	1.42e-03	33	24	2	MM14508
Pathway	REACTOME_FORMATION_OF_THE_EARLY_ELONGATION_COMPLEX	POLR2A POLR2B	1.42e-03	33	24	2	M26919
Pathway	REACTOME_HIV_ELONGATION_ARREST_AND_RECOVERY	POLR2A POLR2B	1.42e-03	33	24	2	M27010
Pathway	REACTOME_GENE_SILENCING_BY_RNA	TNRC6C POLR2A POLR2B	1.63e-03	139	24	3	M715
Pathway	REACTOME_ESTROGEN_DEPENDENT_GENE_EXPRESSION	TNRC6C POLR2A POLR2B	1.99e-03	149	24	3	M27888
Pathway	WP_EUKARYOTIC_TRANSCRIPTION_INITIATION	POLR2A POLR2B	2.29e-03	42	24	2	M39386
Pathway	REACTOME_SIGNALING_BY_FGFR2_IN_DISEASE	POLR2A POLR2B	2.40e-03	43	24	2	M27534
Pathway	WP_EUKARYOTIC_TRANSCRIPTION_INITIATION	POLR2A POLR2B	2.40e-03	43	24	2	MM15919
Pathway	REACTOME_HIV_TRANSCRIPTION_ELONGATION	POLR2A POLR2B	2.40e-03	43	24	2	M29569
Pathway	REACTOME_VIRAL_MESSENGER_RNA_SYNTHESIS	POLR2A POLR2B	2.52e-03	44	24	2	M109
Pathway	REACTOME_TP53_REGULATES_TRANSCRIPTION_OF_DNA_REPAIR_GENES	POLR2A POLR2B	2.87e-03	47	24	2	MM15328
Pathway	REACTOME_TRANSCRIPTIONAL_REGULATION_BY_TP53	TAF3 TNRC6C POLR2A POLR2B	2.97e-03	360	24	4	M27267
Pathway	REACTOME_MRNA_SPLICING_MINOR_PATHWAY	POLR2A POLR2B	2.99e-03	48	24	2	MM15410
Pathway	REACTOME_MRNA_SPLICING_MINOR_PATHWAY	POLR2A POLR2B	3.24e-03	50	24	2	M5583
Pathway	REACTOME_FORMATION_OF_TC_NER_PRE_INCISION_COMPLEX	POLR2A POLR2B	3.37e-03	51	24	2	MM15315
Pathway	REACTOME_FORMATION_OF_TC_NER_PRE_INCISION_COMPLEX	POLR2A POLR2B	3.37e-03	51	24	2	M27599
Pathway	REACTOME_FORMATION_OF_RNA_POL_II_ELONGATION_COMPLEX	POLR2A POLR2B	4.33e-03	58	24	2	M805
Pathway	REACTOME_FORMATION_OF_RNA_POL_II_ELONGATION_COMPLEX	POLR2A POLR2B	4.48e-03	59	24	2	MM14504
Pathway	REACTOME_TP53_REGULATES_TRANSCRIPTION_OF_DNA_REPAIR_GENES	POLR2A POLR2B	4.94e-03	62	24	2	M27618
Pathway	REACTOME_SIGNALING_BY_FGFR2	POLR2A POLR2B	4.94e-03	62	24	2	MM15256
Pathway	REACTOME_DUAL_INCISION_IN_TC_NER	POLR2A POLR2B	5.09e-03	63	24	2	MM15317
Pathway	REACTOME_DUAL_INCISION_IN_TC_NER	POLR2A POLR2B	5.09e-03	63	24	2	M27601
Pathway	REACTOME_ESTROGEN_DEPENDENT_GENE_EXPRESSION	POLR2A POLR2B	5.09e-03	63	24	2	MM15613
Pathway	REACTOME_SIGNALING_BY_FGFR_IN_DISEASE	POLR2A POLR2B	5.09e-03	63	24	2	M635
Pathway	REACTOME_INHIBITION_OF_DNA_RECOMBINATION_AT_TELOMERE	POLR2A POLR2B	5.74e-03	67	24	2	M39003
Pathway	REACTOME_ESR_MEDIATED_SIGNALING	TNRC6C POLR2A POLR2B	5.96e-03	220	24	3	M27794
Pathway	REACTOME_SIGNALING_BY_FGFR2	POLR2A POLR2B	6.78e-03	73	24	2	M27531
Pathway	REACTOME_RNA_POLYMERASE_II_TRANSCRIBES_SNRNA_GENES	POLR2A POLR2B	6.78e-03	73	24	2	MM15349
Pathway	REACTOME_TRANSCRIPTION_COUPLED_NUCLEOTIDE_EXCISION_REPAIR_TC_NER	POLR2A POLR2B	7.15e-03	75	24	2	MM15316
Pathway	REACTOME_TRANSCRIPTION_COUPLED_NUCLEOTIDE_EXCISION_REPAIR_TC_NER	POLR2A POLR2B	7.33e-03	76	24	2	M27600
Pathway	WP_ESTROGEN_SIGNALING	POLR2A POLR2B	7.52e-03	77	24	2	MM15934
Pathway	REACTOME_SIGNALING_BY_FGFR	POLR2A POLR2B	7.52e-03	77	24	2	MM14722
Pathway	REACTOME_RNA_POLYMERASE_II_TRANSCRIBES_SNRNA_GENES	POLR2A POLR2B	8.29e-03	81	24	2	M27647
Pathway	WP_PYRIMIDINE_METABOLISM	POLR2A POLR2B	8.89e-03	84	24	2	M48340
Pubmed	RNA polymerase II acts as an RNA-dependent RNA polymerase to extend and destabilize a non-coding RNA.	POLR2A POLR2B	1.10e-06	2	37	2	23395899
Pubmed	Hepatitis delta antigen binds to the clamp of RNA polymerase II and affects transcriptional fidelity.	POLR2A POLR2B	1.10e-06	2	37	2	17584298
Pubmed	The human CDK8 subcomplex is a molecular switch that controls Mediator coactivator function.	TAF3 POLR2A POLR2B	2.51e-06	25	37	3	19240132
Pubmed	ARS2/SRRT: at the nexus of RNA polymerase II transcription, transcript maturation and quality control.	POLR2A POLR2B	3.30e-06	3	37	2	34060620
Pubmed	The non-coding B2 RNA binds to the DNA cleft and active-site region of RNA polymerase II.	POLR2A POLR2B	3.30e-06	3	37	2	23416138
Pubmed	Structural mimicry in transcription regulation of human RNA polymerase II by the DNA helicase RECQL5.	POLR2A POLR2B	6.60e-06	4	37	2	23748380
Pubmed	Association of Tat with purified HIV-1 and HIV-2 transcription preinitiation complexes.	TAF3 POLR2A POLR2B	9.86e-06	39	37	3	9054383
Pubmed	Chromosomal localization of human RNA polymerase II subunit genes.	POLR2A POLR2B	1.10e-05	5	37	2	8034326
Pubmed	Reference genes in the developing murine brain and in differentiating embryonic stem cells.	POLR2A POLR2B	1.10e-05	5	37	2	22735032
Pubmed	A dual-activity topoisomerase complex regulates mRNA translation and turnover.	HIVEP3 RADIL TNRC6C SSBP4 PTPRS NBEAL2 SCARB1 POLR2A	1.72e-05	1105	37	8	35748872
Pubmed	A Cancer-Specific Ubiquitin Ligase Drives mRNA Alternative Polyadenylation by Ubiquitinating the mRNA 3' End Processing Complex.	POLR2A POLR2B	2.30e-05	7	37	2	31980388
Pubmed	The OTUD5-UBR5 complex regulates FACT-mediated transcription at damaged chromatin.	POLR2A POLR2B	3.95e-05	9	37	2	30508113
Pubmed	Wdr82 is a C-terminal domain-binding protein that recruits the Setd1A Histone H3-Lys4 methyltransferase complex to transcription start sites of transcribed human genes.	POLR2A POLR2B	4.93e-05	10	37	2	17998332
Pubmed	NF-Y is essential for the recruitment of RNA polymerase II and inducible transcription of several CCAAT box-containing genes.	POLR2A POLR2B	4.93e-05	10	37	2	15601870
Pubmed	Interactions between the full complement of human RNA polymerase II subunits.	POLR2A POLR2B	4.93e-05	10	37	2	10567706
Pubmed	Interactions between the human RNA polymerase II subunits.	POLR2A POLR2B	4.93e-05	10	37	2	9201987
Pubmed	Inhibition of HIV-1 virus replication using small soluble Tat peptides.	POLR2A POLR2B	6.02e-05	11	37	2	16289656
Pubmed	MRE11 complex links RECQ5 helicase to sites of DNA damage.	POLR2A POLR2B	6.02e-05	11	37	2	19270065
Pubmed	Human mediator subunit MED26 functions as a docking site for transcription elongation factors.	TAF3 POLR2A POLR2B	6.55e-05	73	37	3	21729782
Pubmed	Human immunodeficiency virus type 1 Tat-dependent activation of an arrested RNA polymerase II elongation complex.	POLR2A POLR2B	7.22e-05	12	37	2	10069959
Pubmed	Inhibition of RIF1 by SCAI Allows BRCA1-Mediated Repair.	POLR2A POLR2B	7.22e-05	12	37	2	28700933
Pubmed	Trans-activation by human immunodeficiency virus Tat protein requires the C-terminal domain of RNA polymerase II.	POLR2A POLR2B	7.22e-05	12	37	2	8876177
Pubmed	Human immunodeficiency virus type-1 Tat is an integral component of the activated transcription-elongation complex.	POLR2A POLR2B	7.22e-05	12	37	2	8637904
Pubmed	RPAP1, a novel human RNA polymerase II-associated protein affinity purified with recombinant wild-type and mutated polymerase subunits.	POLR2A POLR2B	7.22e-05	12	37	2	15282305
Pubmed	A bimolecular mechanism of HIV-1 Tat protein interaction with RNA polymerase II transcription elongation complexes.	POLR2A POLR2B	7.22e-05	12	37	2	12126615
Pubmed	Requirements for RNA polymerase II carboxyl-terminal domain for activated transcription of human retroviruses human T-cell lymphotropic virus I and HIV-1.	POLR2A POLR2B	7.22e-05	12	37	2	8910388
Pubmed	Transcriptional cofactor CA150 regulates RNA polymerase II elongation in a TATA-box-dependent manner.	POLR2A POLR2B	8.53e-05	13	37	2	10373521
Pubmed	Architecture of RNA polymerase II and implications for the transcription mechanism.	POLR2A POLR2B	8.53e-05	13	37	2	10784442
Pubmed	TIP30 has an intrinsic kinase activity required for up-regulation of a subset of apoptotic genes.	POLR2A POLR2B	8.53e-05	13	37	2	10698937
Pubmed	BRCA1 interaction with RNA polymerase II reveals a role for hRPB2 and hRPB10alpha in activated transcription.	POLR2A POLR2B	8.53e-05	13	37	2	10725406
Pubmed	Specific binding of RNA polymerase II to the human immunodeficiency virus trans-activating region RNA is regulated by cellular cofactors and Tat.	POLR2A POLR2B	8.53e-05	13	37	2	7638159
Pubmed	Identification of novel inhibitors of human immunodeficiency virus type 1 replication by in silico screening targeting cyclin T1/Tat interaction.	POLR2A POLR2B	9.94e-05	14	37	2	23274668
Pubmed	Meta-analysis of Parkinson's disease: identification of a novel locus, RIT2.	SLC2A13 CNKSR3	9.94e-05	14	37	2	22451204
Pubmed	A novel human SRB/MED-containing cofactor complex, SMCC, involved in transcription regulation.	POLR2A POLR2B	9.94e-05	14	37	2	10024883
Pubmed	Regulatory functions of Cdk9 and of cyclin T1 in HIV tat transactivation pathway gene expression.	POLR2A POLR2B	9.94e-05	14	37	2	10536359
Pubmed	The ability of positive transcription elongation factor B to transactivate human immunodeficiency virus transcription depends on a functional kinase domain, cyclin T1, and Tat.	POLR2A POLR2B	9.94e-05	14	37	2	9696809
Pubmed	HIV-1 Tat interaction with RNA polymerase II C-terminal domain (CTD) and a dynamic association with CDK2 induce CTD phosphorylation and transcription from HIV-1 promoter.	POLR2A POLR2B	9.94e-05	14	37	2	12114499
Pubmed	Cyclin T1 domains involved in complex formation with Tat and TAR RNA are critical for tat-activation.	POLR2A POLR2B	9.94e-05	14	37	2	10329125
Pubmed	The human immunodeficiency virus Tat proteins specifically associate with TAK in vivo and require the carboxyl-terminal domain of RNA polymerase II for function.	POLR2A POLR2B	9.94e-05	14	37	2	8676484
Pubmed	Lentivirus Tat proteins specifically associate with a cellular protein kinase, TAK, that hyperphosphorylates the carboxyl-terminal domain of the large subunit of RNA polymerase II: candidate for a Tat cofactor.	POLR2A POLR2B	9.94e-05	14	37	2	7853496
Pubmed	Human and rodent transcription elongation factor P-TEFb: interactions with human immunodeficiency virus type 1 tat and carboxy-terminal domain substrate.	POLR2A POLR2B	9.94e-05	14	37	2	10364292
Pubmed	A novel CDK9-associated C-type cyclin interacts directly with HIV-1 Tat and mediates its high-affinity, loop-specific binding to TAR RNA.	POLR2A POLR2B	1.15e-04	15	37	2	9491887
Pubmed	HIV-1 Tat-associated RNA polymerase C-terminal domain kinase, CDK2, phosphorylates CDK7 and stimulates Tat-mediated transcription.	POLR2A POLR2B	1.15e-04	15	37	2	12049628
Pubmed	Cooperative interaction between HIV-1 regulatory proteins Tat and Vpr modulates transcription of the viral genome.	POLR2A POLR2B	1.15e-04	15	37	2	10931842
Pubmed	Phosphorylation of the RAP74 subunit of TFIIF correlates with Tat-activated transcription of the HIV-1 long terminal repeat.	POLR2A POLR2B	1.15e-04	15	37	2	10704353
Pubmed	Menin associates with a trithorax family histone methyltransferase complex and with the hoxc8 locus.	POLR2A POLR2B	1.15e-04	15	37	2	14992727
Pubmed	Tip110 protein binds to unphosphorylated RNA polymerase II and promotes its phosphorylation and HIV-1 long terminal repeat transcription.	POLR2A POLR2B	1.15e-04	15	37	2	24217245
Pubmed	TRIM28 functions as the SUMO E3 ligase for PCNA in prevention of transcription induced DNA breaks.	POLR2A POLR2B	1.15e-04	15	37	2	32900933
Pubmed	Spt5 cooperates with human immunodeficiency virus type 1 Tat by preventing premature RNA release at terminator sequences.	POLR2A POLR2B	1.15e-04	15	37	2	11809800
Pubmed	The HIV-1 Vpr co-activator induces a conformational change in TFIIB.	POLR2A POLR2B	1.15e-04	15	37	2	10359081
Pubmed	Acetylation of Tat defines a cyclinT1-independent step in HIV transactivation.	POLR2A POLR2B	1.15e-04	15	37	2	12887902
Pubmed	Human immunodeficiency virus type 1 (HIV-1) Vpr enhances expression from unintegrated HIV-1 DNA.	POLR2A POLR2B	1.31e-04	16	37	2	12634356
Pubmed	HIV-1 Vpr binding to HIV-1 LTR C/EBP cis-acting elements and adjacent regions is sequence-specific.	POLR2A POLR2B	1.31e-04	16	37	2	12642036
Pubmed	Domains in the SPT5 protein that modulate its transcriptional regulatory properties.	POLR2A POLR2B	1.31e-04	16	37	2	10757782
Pubmed	Transcriptional activators differ in their abilities to control alternative splicing.	POLR2A POLR2B	1.31e-04	16	37	2	12221105
Pubmed	Phosphorylation of the RNA polymerase II carboxyl-terminal domain by CDK9 is directly responsible for human immunodeficiency virus type 1 Tat-activated transcriptional elongation.	POLR2A POLR2B	1.31e-04	16	37	2	12052871
Pubmed	HIV-1 tat transcriptional activity is regulated by acetylation.	POLR2A POLR2B	1.48e-04	17	37	2	10545121
Pubmed	A novel RNA polymerase II-containing complex potentiates Tat-enhanced HIV-1 transcription.	POLR2A POLR2B	1.48e-04	17	37	2	10393184
Pubmed	CDK9 autophosphorylation regulates high-affinity binding of the human immunodeficiency virus type 1 tat-P-TEFb complex to TAR RNA.	POLR2A POLR2B	1.48e-04	17	37	2	10958691
Pubmed	Multiple modes of transcriptional regulation by the HIV-1 Tat transactivator.	POLR2A POLR2B	1.48e-04	17	37	2	11547919
Pubmed	HIV-1 Tat acts as a processivity factor in vitro in conjunction with cellular elongation factors.	POLR2A POLR2B	1.48e-04	17	37	2	1559613
Pubmed	Systematic bromodomain protein screens identify homologous recombination and R-loop suppression pathways involved in genome integrity.	ACTL7A RSBN1 DGKE TAF3 POLR2A POLR2B RTL9	1.52e-04	1116	37	7	31753913
Pubmed	CA150, a nuclear protein associated with the RNA polymerase II holoenzyme, is involved in Tat-activated human immunodeficiency virus type 1 transcription.	POLR2A POLR2B	1.67e-04	18	37	2	9315662
Pubmed	The BET bromodomain inhibitor JQ1 activates HIV latency through antagonizing Brd4 inhibition of Tat-transactivation.	POLR2A POLR2B	1.67e-04	18	37	2	23087374
Pubmed	Transcription factor TFIIH components enhance the GR coactivator activity but not the cell cycle-arresting activity of the human immunodeficiency virus type-1 protein Vpr.	POLR2A POLR2B	1.86e-04	19	37	2	12379213
Pubmed	DSIF and NELF interact with RNA polymerase II elongation complex and HIV-1 Tat stimulates P-TEFb-mediated phosphorylation of RNA polymerase II and DSIF during transcription elongation.	POLR2A POLR2B	2.07e-04	20	37	2	11112772
Pubmed	The catalytic subunit of the proteasome is engaged in the entire process of estrogen receptor-regulated transcription.	POLR2A POLR2B	2.07e-04	20	37	2	16957778
Pubmed	Immunoaffinity purification and functional characterization of human transcription factor IIH and RNA polymerase II from clonal cell lines that conditionally express epitope-tagged subunits of the multiprotein complexes.	POLR2A POLR2B	2.28e-04	21	37	2	9852112
Pubmed	The HIV transactivator TAT binds to the CDK-activating kinase and activates the phosphorylation of the carboxy-terminal domain of RNA polymerase II.	POLR2A POLR2B	2.28e-04	21	37	2	9334327
Pubmed	Direct evidence that HIV-1 Tat stimulates RNA polymerase II carboxyl-terminal domain hyperphosphorylation during transcriptional elongation.	POLR2A POLR2B	2.75e-04	23	37	2	10438593
Pubmed	Tat modifies the activity of CDK9 to phosphorylate serine 5 of the RNA polymerase II carboxyl-terminal domain during human immunodeficiency virus type 1 transcription.	POLR2A POLR2B	2.75e-04	23	37	2	10866664
Pubmed	Transcriptional control: Tat cofactors and transcriptional elongation.	POLR2A POLR2B	2.75e-04	23	37	2	9651670
Pubmed	A human primary T-lymphocyte-derived human immunodeficiency virus type 1 Tat-associated kinase phosphorylates the C-terminal domain of RNA polymerase II and induces CAK activity.	POLR2A POLR2B	2.75e-04	23	37	2	9311822
Pubmed	Tat, Tat-associated kinase, and transcription.	POLR2A POLR2B	2.75e-04	23	37	2	9570510
Pubmed	The Tat/TAR-dependent phosphorylation of RNA polymerase II C-terminal domain stimulates cotranscriptional capping of HIV-1 mRNA.	POLR2A POLR2B	2.99e-04	24	37	2	14569024
Pubmed	Tat-associated kinase (P-TEFb): a component of transcription preinitiation and elongation complexes.	POLR2A POLR2B	2.99e-04	24	37	2	10066804
Pubmed	Requirement for a kinase-specific chaperone pathway in the production of a Cdk9/cyclin T1 heterodimer responsible for P-TEFb-mediated tat stimulation of HIV-1 transcription.	POLR2A POLR2B	2.99e-04	24	37	2	10617616
Pubmed	Purification of a Tat-associated kinase reveals a TFIIH complex that modulates HIV-1 transcription.	POLR2A POLR2B	3.25e-04	25	37	2	9184228
Pubmed	Enhanced processivity of RNA polymerase II triggered by Tat-induced phosphorylation of its carboxy-terminal domain.	POLR2A POLR2B	3.25e-04	25	37	2	8934526
Pubmed	The PP2A-Integrator-CDK9 axis fine-tunes transcription and can be targeted therapeutically in cancer.	POLR2A POLR2B	3.25e-04	25	37	2	34004147
Pubmed	Elongin A regulates transcription in vivo through enhanced RNA polymerase processivity.	POLR2A POLR2B	3.52e-04	26	37	2	33298525
Pubmed	Cell Surface Proteomic Map of HIV Infection Reveals Antagonism of Amino Acid Metabolism by Vpu and Nef.	CD248 PTPRS SCARB1	3.78e-04	132	37	3	26439863
Pubmed	Identification and characterization of a novel human PP1 phosphatase complex.	POLR2A POLR2B	5.02e-04	31	37	2	20516061
Pubmed	The cooperative action of CSB, CSA, and UVSSA target TFIIH to DNA damage-stalled RNA polymerase II.	POLR2A POLR2B	5.02e-04	31	37	2	32355176
Pubmed	The RNA polymerase II elongation complex.	POLR2A POLR2B	5.69e-04	33	37	2	12676794
Pubmed	TRIM65 regulates microRNA activity by ubiquitination of TNRC6.	APBA3 TNRC6C POLR2A POLR2B	5.93e-04	364	37	4	24778252
Pubmed	Disease-associated KBTBD4 mutations in medulloblastoma elicit neomorphic ubiquitylation activity to promote CoREST degradation.	POLR2A POLR2B	6.78e-04	36	37	2	35379950
Pubmed	A RECQ5-RNA polymerase II association identified by targeted proteomic analysis of human chromatin.	POLR2A POLR2B	7.16e-04	37	37	2	18562274
Pubmed	A Novel Mechanism for NF-κB-activation via IκB-aggregation: Implications for Hepatic Mallory-Denk-Body Induced Inflammation.	POLR2A POLR2B	7.16e-04	37	37	2	32912968
Pubmed	The general transcription factors of RNA polymerase II.	POLR2A POLR2B	7.96e-04	39	37	2	8946909
Pubmed	Three transitions in the RNA polymerase II transcription complex during initiation.	POLR2A POLR2B	7.96e-04	39	37	2	9405375
Pubmed	The human immunodeficiency virus transactivator Tat interacts with the RNA polymerase II holoenzyme.	POLR2A POLR2B	7.96e-04	39	37	2	9121429
Pubmed	Abortive initiation is increased only for the weakest members of a set of down mutants of the adenovirus 2 major late promoter.	POLR2A POLR2B	8.37e-04	40	37	2	1939271
Pubmed	ATP activates transcription initiation from promoters by RNA polymerase II in a reversible step prior to RNA synthesis.	POLR2A POLR2B	8.37e-04	40	37	2	2449431
Pubmed	Differential transcriptional regulation by human immunodeficiency virus type 1 and gp120 in human astrocytes.	POLR2A POLR2B	8.80e-04	41	37	2	12775419
Pubmed	Prohibitin 1 regulates tumor cell apoptosis via the interaction with X-linked inhibitor of apoptosis protein.	RSBN1 TNRC6C VPS4B POLR2A POLR2B	9.74e-04	725	37	5	27025967
Pubmed	ATAC and SAGA co-activator complexes utilize co-translational assembly, but their cellular localization properties and functions are distinct.	POLR2A POLR2B	1.01e-03	44	37	2	37682711
Pubmed	An antibody-based proximity labeling map reveals mechanisms of SARS-CoV-2 inhibition of antiviral immunity.	DGKE ESS2 VPS4B POLR2A POLR2B	1.02e-03	733	37	5	34672954
Pubmed	Aire's partners in the molecular control of immunological tolerance.	POLR2A POLR2B	1.06e-03	45	37	2	20085707
Interaction	SNAR-B2 interactions	POLR2A POLR2B	8.78e-06	3	35	2	int:SNAR-B2
Cytoband	Ensembl 112 genes in cytogenetic band chr19p13	MUC16 APBA3 SSBP4 PTPRS SWSAP1	4.28e-04	797	37	5	chr19p13
GeneFamily	RNA polymerase subunits	POLR2A POLR2B	7.88e-04	29	26	2	726
GeneFamily	PDZ domain containing	APBA3 RADIL CNKSR3	1.31e-03	152	26	3	1220
ToppCell	E16.5-Mesenchymal-Mesenchymal_structural-Fibroblastic-AF2\|E16.5 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	CPNE6 CD248 KCND2 PTPRS	1.10e-05	167	37	4	fe3338f99f94c0dac37e3d649dfdce82e4a56022
ToppCell	facs-Trachea-18m-Mesenchymal-fibroblast-fibroblast_of_trachea-tracheal_fibroblast_l20-1\|18m / method, tissue, age, lineage, sublineage, cell ontologies, cell type and subtype	RADIL CD248 PTPRS SWSAP1	1.29e-05	174	37	4	1d157f7a919c8246e83d8060d2a0017c6c781ef3
ToppCell	droplet-Heart-nan-3m-Endothelial-endothelial_cell_of_coronary_artery\|Heart / Tongue_Heart_Limb_Muscle_Aorta_Diaphragm - method, tissue, subtissue, age, lineage, cell ontology and free annotation	DGKE ARHGAP31 SCARB1 MTSS1	1.54e-05	182	37	4	81279877b920b5a1bc991a07d3031d6458700fe3
ToppCell	CV-Severe-0\|Severe / Virus stimulation, Condition and Cluster	SLC43A2 ARHGAP31 MFSD10 MTSS1	2.10e-05	197	37	4	d13fc20b31ab6d9117437fba319c72f3a552858f
ToppCell	H1299-infected-SARSCoV2\|infected / Cell line, Condition and Strain	TAF3 SSBP4 MFSD10 POLR2A	2.10e-05	197	37	4	0fa3e4cf93e77d78b1f97b906c5b13ca741ae17e
ToppCell	renal_cortex_nuclei-Adult_normal_reference-Endothelial-blood_vessel_endothelial_cell_of_kidney-capillary-immature_endothelial_cell-Glomerular_Capillary_Endothelial_Cell\|Adult_normal_reference / Celltypes from Cells and Nuclei per compartment and clinical group	HIVEP3 DGKE ARHGAP31 MTSS1	2.14e-05	198	37	4	92416e65a0dc1a4bf931833407620ea05d362f56
Disease	citrate measurement	ESS2 OTULIN	3.76e-03	79	34	2	EFO_0010114
Disease	eye color	HIVEP3 MUC16	4.84e-03	90	34	2	EFO_0003949
Disease	coronary artery disease (is_implicated_in)	ARHGAP31 BTNL2	5.94e-03	100	34	2	DOID:3393 (is_implicated_in)
Disease	Parkinson disease	SLC2A13 RTL9 CNKSR3	5.95e-03	321	34	3	MONDO_0005180

Protein segments in the cluster

Peptide	Gene	Start	Entry
EMQPMCSSDGWFPQP	BTNL2	376	Q9UIR0
EMPGILWMEPTQPPD	CD248	391	Q9HCU0
QWDPMPGGPGSLSRM	APBA3	36	O96018
MGWVPEPPTMTLGAS	CPNE6	6	O95741
ASAMGPMSTWEPGAQ	RADIL	741	Q96JH8
GPMLGASLPLEMAPW	MFSD10	191	Q14728
MGPGNVSWMTTPPVE	MUC16	5316	Q8WXI7
MMGPLQGDPLWVNVG	SLC43A2	506	Q8N370
GEGPQGVTSMPSSMW	MTSS1	651	O43312
AIGWMPVASGPMPAP	KCND2	16	Q9NZV8
PGSPWMVPGDVAMSG	KIF25-AS1	81	Q9Y6Z4
MAPTWGPGMVSVVGP	PTPRS	1	Q13332
PGRPDMAVPGWSAMV	MYO15B	91	Q96JP2
MSRGTMPQPEAWPGA	OTULIN	1	Q96BN8
PAPGVNESPMMTWGE	ESS2	306	Q96DF8
GMMLQEQLPMDSGPW	CPHXL2	301	A0A1W2PPK0
QWPPGMGAQLRGPMD	BCL9L	571	Q86UU0
GMGWTEDLPPMGGPS	BCL9L	636	Q86UU0
MPMQVDGEPWAQGPC	DGKE	516	P52429
APGMGPMPWTVNSEI	SLC2A13	521	Q96QE2
TQTMPAPGSGAMSPW	RTL9	361	Q8NET4
DGPIMWVRPGEQMIP	RSBN1	526	Q5VWQ0
GIMTAPPEEMQWFCP	TAF3	896	Q5VWG9
PNWGMAVGMGAIIPP	TNRC6C	206	Q9HCJ0
SMAGIMVPPVQRWPG	NBEAL2	586	Q6ZNJ1
PTHWERDGAPSPMMP	POLR2B	96	P30876
GTSGQMWPPFMTPES	SCARB1	256	Q8WTV0
SDGEMMIAPWPTQAG	SWSAP1	201	Q6NVH7
MWAPPAAIMGDGPTK	ACTL7A	1	Q9Y615
PLSMPADGNWMGIVD	CNK3/IPCEF1	431	G9CGD6
PGNMGWMRPSQETTP	CLUHP3	26	Q96NS8
PLSMPADGNWMGIVD	CNKSR3	431	Q6P9H4
PGDPGAIEMTWMDVP	VPS4B	386	O75351
PAMNMGPGVRGPWAS	SSBP4	231	Q9BWG4
APSPMGGISPAMTPW	POLR2A	1506	P24928
MSSQSMPGLPWLGPA	HIVEP3	1931	Q5T1R4
GMQVSEPGDPKVTWM	ARHGAP31	1131	Q2M1Z3
SVSVGPAWMMVPAGR	SGSM1	441	Q2NKQ1
GPAETLEMWLMPQGS	XYLT2	616	Q9H1B5