RNA Polymerase II Transcription (Homo sapiens)

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10, 13, 21, 2420202204, 12, 17, 21971, 4, 8, 11, 15...20, 22224, 699203, 1824, 214, 6Capped IntronlessHistonepre-mRNA:CBC:ZFP100Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]Elongation complexprior to separation[nucleoplasm]RNA Polymerase IIholoenzyme complex(phosphorylated)[nucleoplasm]TFIIH [nucleoplasm]NELF complex[nucleoplasm]Elongin Complex[nucleoplasm]P-TEFb complex[nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIID [nucleoplasm]RNA Polymerase IIholoenzyme complex(phosphorylated)[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]CAK [nucleoplasm]nucleoplasmupstream mRNAfragment:CPSF:PAP:PABPN1complex[nucleoplasm]Elongin B:C complex[nucleoplasm]Elongin Complex[nucleoplasm]TFIIE [nucleoplasm]Elongin Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]P-TEFb complex[nucleoplasm]CPSF [nucleoplasm]Elongin B:C complex[nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIIF [nucleoplasm]TFIIE [nucleoplasm]CPSF [nucleoplasm]TFIIA [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]TFIIF [nucleoplasm]TFIID [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]Processiveelongation complex[nucleoplasm]NTP [nucleoplasm]DSIF complex[nucleoplasm]TFIIH [nucleoplasm]RNA Pol II withphosphorylated CTD:CE complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIH [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIBcomplex[nucleoplasm]TFIIA [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIE [nucleoplasm]Mature Intronlesstranscript derivedHistonemRNA:SLBP:CBP80:CBP20[nucleoplasm]TFIIH [nucleoplasm]TFIID [nucleoplasm]Magoh-Y14 complex[nucleoplasm]TFIIF [nucleoplasm]NELF complex[nucleoplasm]TFIIA [nucleoplasm]TFIIF [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]TFIIA [nucleoplasm]CF II [nucleoplasm]RNA Pol II withphosphorylated CTD:CE complex withactivated GT[nucleoplasm]CstF [nucleoplasm]TFIIF [nucleoplasm]CAK [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIID [nucleoplasm]NTP [nucleoplasm]Early elongationcomplex withhyperphosphorylatedPol II CTD[nucleoplasm]DSIF complex[nucleoplasm]TFIIF [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]TFIIA [nucleoplasm]TFIIF [nucleoplasm]TFIIH [nucleoplasm]TFIIF [nucleoplasm]TFIIA [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF:TFIIEcomplex[nucleoplasm]TFIIF [nucleoplasm]P-TEFb complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIH [nucleoplasm]capped intronlesspre-mRNA:CBC complex[nucleoplasm]RNA polymerase II(phosphorylated):TFIIFcomplex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]CAK [nucleoplasm]CF II [nucleoplasm]Capped IntronlessHistonepre-mRNA:CBP80:CBP20:SLBP:ZFP100Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]Elongin B:C complex[nucleoplasm]TFIIF [nucleoplasm]CAK [nucleoplasm]pol II openpre-initiationcomplex[nucleoplasm]DSIF complex[nucleoplasm]CAK [nucleoplasm]CPSF:cappedintronlesspre-mRNA:CBC complex[nucleoplasm]Elongin B:C complex[nucleoplasm]U7 snRNP-specific Smcore complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hypophosphorylated):TFIIFcomplex[nucleoplasm]RNA Pol II(hypophosphorylated):cappedpre-mRNA complex[nucleoplasm]TFIIF [nucleoplasm]P-TEFb complex[nucleoplasm]CPSF [nucleoplasm]CAK [nucleoplasm]RNA Pol II(hypophosphorylated)complex bound toDSIF protein[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]TFIID [nucleoplasm]Magoh-Y14 complex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]P-TEFb complex[nucleoplasm]pre-EJC complex[nucleoplasm]Capped IntronlessHistone pre-mRNA:CBCcomplex[nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF complex[nucleoplasm]FACT complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(phosphorylated)[nucleoplasm]CE:Pol II CTD:Spt5complex[nucleoplasm]pol II transcriptioncomplex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]FACT complex[nucleoplasm]EJC complex[nucleoplasm]CAK [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIIF [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF complex[nucleoplasm]NTP [nucleoplasm]RNA PolymearseII:NTP:TFIIF complex[nucleoplasm]RNA Pol II(hypophosphorylated):cappedpre-mRNA complex[nucleoplasm]cappedpre-mRNA:CBC:RNA PolII (phosphorylated)complex[nucleoplasm]Elongin B:C complex[nucleoplasm]pol IIpromoter:TFIIDcomplex[nucleoplasm]CstF:CPSF:cappedintronlesspre-mRNA:CBC complex[nucleoplasm]TFIIF [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]NELF complex[nucleoplasm]RNA Pol II(hypophosphorylated):cappedpre-mRNA complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]CstF [nucleoplasm]CAK [nucleoplasm]CAK [nucleoplasm]TFIIH [nucleoplasm]NELF complex[nucleoplasm]CAK [nucleoplasm]CAK [nucleoplasm]RNA Polymerase IIholoenzyme complex(hypophosphorylated):TFIIFcomplex[nucleoplasm]TFIID [nucleoplasm]FACT complex[nucleoplasm]Elongin B:C complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]pol IIpromoter:TFIIDcomplex[nucleoplasm]Elongin Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]TFIIF [nucleoplasm]Elongin B:C complex[nucleoplasm]TFIID [nucleoplasm]FACT complex[nucleoplasm]P-TEFb complex[nucleoplasm]TFIIF [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]Pol II transcriptioncomplex containingtranscript to +30[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]CAK [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]RNA Polymerase IIholoenzyme complex(phosphorylated)[nucleoplasm]NTP [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIBcomplex[nucleoplasm]TFIIF [nucleoplasm]DSIF complex[nucleoplasm]NELF complex[nucleoplasm]TFIIF [nucleoplasm]NELF complex[nucleoplasm]Elongin B:C complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]CAK [nucleoplasm]TFIID [nucleoplasm]RNA Polymerase IIholoenzyme complex(hypophosphorylated):TFIIFcomplex[nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIIF [nucleoplasm]U7 snRNP:ZNF473[nucleoplasm]Arrested processiveelongation complex[nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF complex[nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIIA [nucleoplasm]Elongin Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(phosphorylated)[nucleoplasm]Aborted elongationcomplex after arrest[nucleoplasm]DSIF complex[nucleoplasm]CAK [nucleoplasm]Elongin B:C complex[nucleoplasm]NELF complex[nucleoplasm]TFIIE [nucleoplasm]CF II [nucleoplasm]TFIIF [nucleoplasm]FACT complex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]NELF complex[nucleoplasm]CAK [nucleoplasm]TFIIH [nucleoplasm]TFIIF [nucleoplasm]DSIF complex[nucleoplasm]TFIIH [nucleoplasm]TFIIH [nucleoplasm]NELF complex[nucleoplasm]CF I [nucleoplasm]CF II [nucleoplasm]TFIIE [nucleoplasm]CAK [nucleoplasm]CAK [nucleoplasm]TFIIH [nucleoplasm]TFIIF [nucleoplasm]TFIIF [nucleoplasm]CAK [nucleoplasm]TFIIE [nucleoplasm]RNA Pol II(hypophosphorylated)complex bound toDSIF protein[nucleoplasm]TFIIH [nucleoplasm]FACT complex[nucleoplasm]TFIIF [nucleoplasm]TFIIE [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]pol IIpromoter:TFIIDcomplex[nucleoplasm]TFIIH [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]intronless pre-mRNAcleavage complex[nucleoplasm]DSIF complex[nucleoplasm]P-TEFb complex[nucleoplasm]Ligated exoncontaining complex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]TFIIF [nucleoplasm]3' end cleaved,ligated exoncontaining complex[nucleoplasm]Pol II Initiationcomplex withphosphodiester-PPiintermediate[nucleoplasm]CstF [nucleoplasm]CAK [nucleoplasm]pre-EJC complex[nucleoplasm]Aborted earlyelongation complex[nucleoplasm]TFIIE [nucleoplasm]RNA Pol II(hypophosphorylated):cappedpre-mRNA complex[nucleoplasm]TFIIA [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]pol II transcriptioncomplex containing 3Nucleotide longtranscript[nucleoplasm]Capped IntronlessHistonepre-mRNA:CBP80:CBP20:SLBP[nucleoplasm]CF I [nucleoplasm]CAK [nucleoplasm]EJC complex[nucleoplasm]pol IIpromoter:TFIIDcomplex[nucleoplasm]DSIF:NELF:earlyelongation complex[nucleoplasm]TFIIF [nucleoplasm]TFIIA [nucleoplasm]CF I [nucleoplasm]Early elongationcomplex withhyperphosphorylatedPol II CTD[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]CAK [nucleoplasm]pol II transcriptioncomplex containing4-9 nucleotide longtranscript[nucleoplasm]NELF complex[nucleoplasm]Elongin Complex[nucleoplasm]Pol II PromoterEscape Complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]RNA polymerase II(phosphorylated):TFIIFcomplex[nucleoplasm]TFIIH [nucleoplasm]TFIIA [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIBcomplex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]P-TEFb complex[nucleoplasm]pol IIpromoter:TFIIDcomplex[nucleoplasm]RNA polymerase II(phosphorylated):TFIIFcomplex[nucleoplasm]U7 snRNP:ZNF473[nucleoplasm]TFIIA [nucleoplasm]TFIIE [nucleoplasm]NTP [nucleoplasm]U7 snRNP:ZNF473[nucleoplasm]TFIIH [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)[nucleoplasm]Pol II initiationcomplex[nucleoplasm]TFIIE [nucleoplasm]RNA polymerase II(phosphorylated):TFIIFcomplex[nucleoplasm]Cleavage andPolyadenylationComplex[nucleoplasm]TFIIH [nucleoplasm]DSIF complex[nucleoplasm]TFIIF [nucleoplasm]Paused processiveelongation complex[nucleoplasm]RNA Pol II(hypophosphorylated)complex bound toDSIF protein[nucleoplasm]CF I [nucleoplasm]U7 snRNP-specific Smcore complex[nucleoplasm]Elongation complex[nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]Elongation complexwith separated anduncleaved transcript[nucleoplasm]RNA Polymerase IIholoenzyme complex(hypophosphorylated):TFIIFcomplex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]TFIID [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated):TFIIFcomplex[nucleoplasm]CAK [nucleoplasm]Pol II transcriptioncomplex with (ser5)phosphorylated CTDcontaining extrudedtranscript to +30[nucleoplasm]pol II transcriptioncomplex containing11 nucleotide longtranscript[nucleoplasm]TFIID [nucleoplasm]CAK [nucleoplasm]NELF complex[nucleoplasm]TFIIF [nucleoplasm]TFIIF [nucleoplasm]Mature intronlesstranscript derivedHistone pre-mRNA:CBCcomplex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIID [nucleoplasm]mRNA 3'-end cleavagefactor [nucleoplasm]Elongin Complex[nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIBcomplex[nucleoplasm]DSIF complex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]TFIIH [nucleoplasm]DSIF complex[nucleoplasm]pol II closedpre-initiationcomplex[nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIF [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]DSIF complex[nucleoplasm]TFIIA [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]FACT complex[nucleoplasm]TFIIH [nucleoplasm]TFIID [nucleoplasm]TFIIF [nucleoplasm]Pol II transcriptioncomplex containingextruded transcriptto +30 [nucleoplasm]pol II transcriptioncomplex containing 4nucleotide longtranscript[nucleoplasm]TFIIH [nucleoplasm]TFIIH [nucleoplasm]TFIIH [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]TFIIF [nucleoplasm]RNA polymerase II(phosphorylated):TFIIFcomplex[nucleoplasm]CPSF [nucleoplasm]TFIIH [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIA [nucleoplasm]TFIID [nucleoplasm]FACT complex[nucleoplasm]P-TEFb complex[nucleoplasm]TFIIE [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]U7 snRNP-specific Smcore complex[nucleoplasm]Elongin Complex[nucleoplasm]DSIF complex[nucleoplasm]RNA Polymerase II(phosphorylated):TFIIF:cappedpre-mRNA[nucleoplasm]TFIID [nucleoplasm]pol II transcriptioncomplex containing 9nucleotide longtranscript[nucleoplasm]TFIIH [nucleoplasm]TFIIF [nucleoplasm]Cap Binding Complex(CBC) [nucleoplasm]RNA Polymerase IIholoenzyme complex(unphosphorylated)[nucleoplasm]TFIIF [nucleoplasm]TFIIF [nucleoplasm]TFIIE [nucleoplasm]Capped IntronlessHistone pre-mRNA:CBCcomplex[nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplex[nucleoplasm]SRRM1 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]GTF2E2 [nucleoplasm]POLR2F(1-127)[nucleoplasm]p-SUPT5H[nucleoplasm]intronless pre-mRNAcleavage complexCDK7 [nucleoplasm]ERCC3 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]ERCC2 [nucleoplasm]TCEA1 [nucleoplasm]POLR2K [nucleoplasm]POLR2K [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2H4 [nucleoplasm]POLR2G [nucleoplasm]FACT complexGTF2E2 [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2H [nucleoplasm]ELL [nucleoplasm]ERCC2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2G [nucleoplasm]GTF2E2 [nucleoplasm]CCNH [nucleoplasm]TAF9 [nucleoplasm]CCNH [nucleoplasm]POLR2J [nucleoplasm]p-SUPT5H[nucleoplasm]NELF complexTAF9 [nucleoplasm]CPSF7 [nucleoplasm]POLR2G [nucleoplasm]TAF1 [nucleoplasm]POLR2G [nucleoplasm]TFIIHPPiPOLR2D(2-142)[nucleoplasm]TCEB1 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]SNRPG [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTP [nucleoplasm]POLR2B [nucleoplasm]GTF2H3 [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2G [nucleoplasm]SSRP1 [nucleoplasm]POLR2L [nucleoplasm]POLR2G [nucleoplasm]GTF2E1 [nucleoplasm]GTF2H3 [nucleoplasm]TAF10 [nucleoplasm]POLR2I [nucleoplasm]TAF10 [nucleoplasm]NCBP2 [nucleoplasm]GTF2E2 [nucleoplasm]NELFCD [nucleoplasm]POLR2E [nucleoplasm]SRSF9 [nucleoplasm]TAF5 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]POLR2G [nucleoplasm]POLR2H [nucleoplasm]SSRP1 [nucleoplasm]GTF2E1 [nucleoplasm]GTF2B [nucleoplasm]GTF2E2 [nucleoplasm]GTF2H2 [nucleoplasm]NCBP1 [nucleoplasm]SUPT4H1TAF4B [nucleoplasm]TAF5 [nucleoplasm]SSRP1 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]p-SUPT5H[nucleoplasm]NELFE [nucleoplasm]CCNT1 [nucleoplasm]TAF4 [nucleoplasm]POLR2J [nucleoplasm]POLR2E [nucleoplasm]ZNF473 [nucleoplasm]ELL [nucleoplasm]SNRPF [nucleoplasm]POLR2C [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIBcomplexPOLR2B [nucleoplasm]POLR2I [nucleoplasm]GTF2H2 [nucleoplasm]SRRM1 [nucleoplasm]TAF11 [nucleoplasm]POLR2H [nucleoplasm]ERCC2 [nucleoplasm]NELFA(2-528)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]MNAT1 [nucleoplasm]TAF11 [nucleoplasm]POLR2E [nucleoplasm]POLR2G [nucleoplasm]POLR2C [nucleoplasm]CCNT2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]TAF10 [nucleoplasm]GTF2H4 [nucleoplasm]RBM8A [nucleoplasm]CLP1 [nucleoplasm]GTF2A2 [nucleoplasm]DHX38 [nucleoplasm]POLR2C [nucleoplasm]POLR2A [nucleoplasm]GTF2A1(275-376)[nucleoplasm]GTF2E2 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]POLR2L [nucleoplasm]GTF2H3 [nucleoplasm]POLR2B [nucleoplasm]POLR2D(2-142)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]CDK7 [nucleoplasm]TAF1 [nucleoplasm]NFX.1 [nucleoplasm]SUPT16H[nucleoplasm]POLR2H [nucleoplasm]GTF2F1(2-517)[nucleoplasm]CDK7 [nucleoplasm]POLR2E [nucleoplasm]p-S5-POLR2A[nucleoplasm]GTF2E2 [nucleoplasm]SNRPB [nucleoplasm]POLR2E [nucleoplasm]TAF1 [nucleoplasm]TAF11 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]TCEB2 [nucleoplasm]CDK7 [nucleoplasm]GTF2H2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]SUPT16HGTF2BPOLR2J [nucleoplasm]CCNH [nucleoplasm]TAF12 [nucleoplasm]LSM11 [nucleoplasm]p-S5-POLR2A[nucleoplasm]ERCC2 [nucleoplasm]PABPN1 [nucleoplasm]POLR2C [nucleoplasm]GTF2H2 [nucleoplasm]POLR2G [nucleoplasm]POLR2L [nucleoplasm]NELFBPOLR2B [nucleoplasm]POLR2C [nucleoplasm]SNRPB [nucleoplasm]POLR2K [nucleoplasm]CCNT2 [nucleoplasm]POLR2A [nucleoplasm]POLR2C [nucleoplasm]CTDP1 [nucleoplasm]ELL [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2A [nucleoplasm]TAF6 [nucleoplasm]TAF9 [nucleoplasm]POLR2C [nucleoplasm]GTF2H3 [nucleoplasm]POLR2K [nucleoplasm]CCNT2Elongation complexwith separated anduncleaved transcriptPOLR2J [nucleoplasm]GTF2H1(2-548)[nucleoplasm]NELFCDGTF2E1 [nucleoplasm]POLR2F(1-127)[nucleoplasm]TAF10 [nucleoplasm]SNRPD3 [nucleoplasm]POLR2C [nucleoplasm]TFIIDNELFCD [nucleoplasm]SNRPG [nucleoplasm]POLR2B [nucleoplasm]DSIF:NELF:earlyelongation complexZNF473 [nucleoplasm]p-SUPT5H[nucleoplasm]CCNH [nucleoplasm]GTF2H1(2-548)[nucleoplasm]CCNT1 [nucleoplasm]SRSF6 [nucleoplasm]U7 snRNP:ZNF473GTF2B [nucleoplasm]NELFA(2-528)[nucleoplasm]GTF2H2 [nucleoplasm]TAF13 [nucleoplasm]SRSF3 [nucleoplasm]ERCC2 [nucleoplasm]GTF2H4 [nucleoplasm]POLR2A [nucleoplasm]ERCC3 [nucleoplasm]NTPMNAT1 [nucleoplasm]GTF2H4 [nucleoplasm]ALYREF [nucleoplasm]MNAT1 [nucleoplasm]NCBP1 [nucleoplasm]NCBP1 [nucleoplasm]POLR2E [nucleoplasm]NCBP1 [nucleoplasm]POLR2G [nucleoplasm]NELFE [nucleoplasm]POLR2L [nucleoplasm]PCF11 [nucleoplasm]ELLPOLR2B [nucleoplasm]TBP [nucleoplasm]p-SUPT5H[nucleoplasm]TAF4B [nucleoplasm]TAF5 [nucleoplasm]NELFB [nucleoplasm]ERCC2 [nucleoplasm]POLR2I [nucleoplasm]POLR2J [nucleoplasm]TAF11 [nucleoplasm]GTF2E1 [nucleoplasm]POLR2F(1-127)[nucleoplasm]TCEB3 [nucleoplasm]PABPN1 [nucleoplasm]POLR2I [nucleoplasm]GTF2F2(2-249)[nucleoplasm]TAF10 [nucleoplasm]upstream mRNAfragment:CPSF:PAP:PABPN1complexCCNH [nucleoplasm]RNA Polymerase II(unphosphorylated):TFIIFcomplexNELFCD [nucleoplasm]TFIIAERCC3 [nucleoplasm]TAF9 [nucleoplasm]CCNH [nucleoplasm]p-SUPT5HPOLR2I [nucleoplasm]POLR2L [nucleoplasm]POLR2F(1-127)[nucleoplasm]NCBP1 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2E [nucleoplasm]TBP [nucleoplasm]POLR2K [nucleoplasm]GTF2A1(275-376)[nucleoplasm]POLR2K [nucleoplasm]POLR2F(1-127)[nucleoplasm]CSTF1 [nucleoplasm]POLR2E [nucleoplasm]POLR2D(2-142)[nucleoplasm]p-SUPT5H[nucleoplasm]ERCC2 [nucleoplasm]POLR2B [nucleoplasm]TCEB2 [nucleoplasm]GTF2A2 [nucleoplasm]TCEB3 [nucleoplasm]POLR2G [nucleoplasm]GTF2E2 [nucleoplasm]NELFE [nucleoplasm]POLR2C [nucleoplasm]POLR2C [nucleoplasm]POLR2I [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF:TFIIEcomplexPOLR2B [nucleoplasm]TCEA1 [nucleoplasm]TAF9 [nucleoplasm]ERCC3 [nucleoplasm]Pol II transcriptioncomplex with (ser5)phosphorylated CTDcontaining extrudedtranscript to +30GTF2F2(2-249)[nucleoplasm]TCEB3 [nucleoplasm]LSM10 [nucleoplasm]CCNT2 [nucleoplasm]GTF2H2 [nucleoplasm]SRSF5 [nucleoplasm]U2AF1 [nucleoplasm]NELFE [nucleoplasm]PCF11 [nucleoplasm]POLR2H [nucleoplasm]ELL [nucleoplasm]ERCC2 [nucleoplasm]POLR2C [nucleoplasm]Elongation complexGTF2H4 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]TAF4B [nucleoplasm]POLR2J [nucleoplasm]mRNA 3'-end cleavagefactorSNRPB [nucleoplasm]POLR2E [nucleoplasm]TAF6 [nucleoplasm]POLR2F(1-127)[nucleoplasm]Mature intronlesstranscript derivedHistone pre-mRNA:CBCcomplexGTF2F1(2-517)[nucleoplasm]POLR2I [nucleoplasm]POLR2G [nucleoplasm]TCEA1 [nucleoplasm]POLR2E [nucleoplasm]CCNT2 [nucleoplasm]TAF13 [nucleoplasm]NELFB [nucleoplasm]GTF2B [nucleoplasm]CDK7 [nucleoplasm]GTP [nucleoplasm]SLBP [nucleoplasm]GTF2E1 [nucleoplasm]TBP [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2G [nucleoplasm]CTDP1 [nucleoplasm]TAF9 [nucleoplasm]NUDT21 [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]TFIIETCEB1 [nucleoplasm]TAF4 [nucleoplasm]CCNT2 [nucleoplasm]POLR2L [nucleoplasm]GTF2H4 [nucleoplasm]MNAT1 [nucleoplasm]POLR2C [nucleoplasm]p-SUPT5H[nucleoplasm]Elongin B:C complexPOLR2A [nucleoplasm]POLR2I [nucleoplasm]SNRPE [nucleoplasm]TAF9 [nucleoplasm]CSTF3 [nucleoplasm]GTF2A2 [nucleoplasm]POLR2E [nucleoplasm]SUPT4H1[nucleoplasm]TAF11 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]TAF12 [nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2I [nucleoplasm]NELFCD [nucleoplasm]GTF2H1(2-548)[nucleoplasm]ERCC2 [nucleoplasm]POLR2I [nucleoplasm]CPSF1 [nucleoplasm]NCBP1 [nucleoplasm]TAF11 [nucleoplasm]NELFCD [nucleoplasm]TAF13 [nucleoplasm]ERCC2 [nucleoplasm]SUPT16H[nucleoplasm]TBP [nucleoplasm]GTF2F1(2-517)[nucleoplasm]GTF2B [nucleoplasm]TCEB2 [nucleoplasm]ATP [nucleoplasm]NTPGTF2E1 [nucleoplasm]TFIIFGTF2H3 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]CDK9 [nucleoplasm]pol II transcriptioncomplex containing 4nucleotide longtranscriptPOLR2C [nucleoplasm]RNPS1 [nucleoplasm]TBP [nucleoplasm]POLR2E [nucleoplasm]POLR2D(2-142)[nucleoplasm]ATP [nucleoplasm]SUPT16H[nucleoplasm]NCBP1 [nucleoplasm]pol IIpromoter:TFIIDcomplexALYREF [nucleoplasm]CDK7 [nucleoplasm]POLR2E [nucleoplasm]POLR2J [nucleoplasm]NELFB [nucleoplasm]ELL [nucleoplasm]Arrested processiveelongation complexGTF2B [nucleoplasm]ATP [nucleoplasm]TAF6 [nucleoplasm]CSTF2(2-577)[nucleoplasm]MNAT1 [nucleoplasm]RNGTT [nucleoplasm]TAF13 [nucleoplasm]POLR2I [nucleoplasm]POLR2C [nucleoplasm]PPiCPSF7 [nucleoplasm]RNMTTAF4 [nucleoplasm]POLR2C [nucleoplasm]POLR2G [nucleoplasm]POLR2J [nucleoplasm]SUPT4H1[nucleoplasm]GTF2A1(1-274)[nucleoplasm]POLR2B [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2L [nucleoplasm]p-SUPT5H[nucleoplasm]UTP [nucleoplasm]CDK7 [nucleoplasm]POLR2K [nucleoplasm]GTF2H3 [nucleoplasm]RNA Pol II(hypophosphorylated)complex bound toDSIF proteinTAF4 [nucleoplasm]GTF2A2 [nucleoplasm]MNAT1 [nucleoplasm]damaged DNAsubstrate:nascentmRNA hybridCTP [nucleoplasm]POLR2G [nucleoplasm]PAPOLA(2-745)[nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2G [nucleoplasm]GTF2A1(1-274)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]SSRP1 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]TAF4 [nucleoplasm]TCEB2 [nucleoplasm]GTF2H2 [nucleoplasm]UTP [nucleoplasm]TAF11 [nucleoplasm]POLR2G [nucleoplasm]GTF2F1(2-517)[nucleoplasm]TBP [nucleoplasm]ERCC2 [nucleoplasm]TCEA1TAF1 [nucleoplasm]SUPT4H1[nucleoplasm]NCBP1 [nucleoplasm]CTP [nucleoplasm]NCBP2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]TBP [nucleoplasm]GTF2H3 [nucleoplasm]POLR2C [nucleoplasm]GTF2A2 [nucleoplasm]SUPT4H1[nucleoplasm]p-S5-POLR2A[nucleoplasm]Elongin ComplexTAF4 [nucleoplasm]CPSF2 [nucleoplasm]CCNT1 [nucleoplasm]TAF13 [nucleoplasm]NELFE [nucleoplasm]TAF5 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2K [nucleoplasm]LSM11 [nucleoplasm]POLR2J [nucleoplasm]GTF2H2 [nucleoplasm]ERCC3 [nucleoplasm]GTF2H2 [nucleoplasm]DSIF complexp-S2,S5-POLR2A[nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2B [nucleoplasm]3' end cleaved,ligated exoncontaining complexPOLR2D(2-142)[nucleoplasm]GTF2A1(1-274)[nucleoplasm]POLR2A [nucleoplasm]POLR2E [nucleoplasm]POLR2B [nucleoplasm]POLR2H [nucleoplasm]NCBP1 [nucleoplasm]POLR2G [nucleoplasm]CCNT2 [nucleoplasm]SUPT16H[nucleoplasm]CF IGTF2F2(2-249)[nucleoplasm]TCEB2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2H [nucleoplasm]GTF2H4 [nucleoplasm]PPiMNAT1 [nucleoplasm]ERCC3 [nucleoplasm]POLR2I [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]CCNT1 [nucleoplasm]POLR2L [nucleoplasm]pol II openpre-initiationcomplexSRSF4 [nucleoplasm]POLR2I [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2K [nucleoplasm]GTF2H3 [nucleoplasm]POLR2C [nucleoplasm]CPSF1 [nucleoplasm]ELL [nucleoplasm]NCBP2 [nucleoplasm]TAF1 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]GTF2H3 [nucleoplasm]TAF12 [nucleoplasm]POLR2D(2-142)[nucleoplasm]GTF2H4 [nucleoplasm]CSTF3 [nucleoplasm]GTF2H2 [nucleoplasm]DNA containing RNAPolymerase IIpromoterCCNT1POLR2H [nucleoplasm]GTF2E1 [nucleoplasm]TAF13 [nucleoplasm]NTPPOLR2C [nucleoplasm]GTF2F2(2-249)[nucleoplasm]TAF10 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]CCNH [nucleoplasm]POLR2J [nucleoplasm]TCEB3 [nucleoplasm]NCBP2 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2H [nucleoplasm]POLR2C [nucleoplasm]CCNT1 [nucleoplasm]TAF6 [nucleoplasm]TAF1 [nucleoplasm]ELL [nucleoplasm]CDK7 [nucleoplasm]CDK7 [nucleoplasm]TAF11 [nucleoplasm]PAPOLA(2-745)[nucleoplasm]POLR2H [nucleoplasm]Processiveelongation complexPOLR2K [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2L [nucleoplasm]POLR2B [nucleoplasm]NELFB [nucleoplasm]TAF6 [nucleoplasm]POLR2E [nucleoplasm]pol II closedpre-initiationcomplexCSTF1 [nucleoplasm]GTF2H2 [nucleoplasm]TCEB3GTF2H3 [nucleoplasm]CPSF7 [nucleoplasm]TAF10 [nucleoplasm]POLR2B [nucleoplasm]Ligated exoncontaining complexTAF4 [nucleoplasm]TAF9 [nucleoplasm]TAF1 [nucleoplasm]POLR2K [nucleoplasm]TAF12 [nucleoplasm]MNAT1 [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2F(1-127)[nucleoplasm]ATP [nucleoplasm]GTF2F1(2-517)[nucleoplasm]NELFB [nucleoplasm]POLR2G [nucleoplasm]POLR2H [nucleoplasm]POLR2L [nucleoplasm]TCEB2 [nucleoplasm]PCF11 [nucleoplasm]POLR2H [nucleoplasm]ERCC2 [nucleoplasm]MNAT1 [nucleoplasm]CCNT2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2I [nucleoplasm]POLR2B [nucleoplasm]ERCC2 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]downstreamintronless mRNAfragmentTAF10 [nucleoplasm]TAF4B [nucleoplasm]GTF2F1(2-517)[nucleoplasm]TAF10 [nucleoplasm]TAF1 [nucleoplasm]SUPT16H[nucleoplasm]SUPT4H1[nucleoplasm]GTF2H4 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2C [nucleoplasm]POLR2F(1-127)[nucleoplasm]TAF6 [nucleoplasm]POLR2I [nucleoplasm]POLR2L [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]GTF2E1 [nucleoplasm]POLR2H [nucleoplasm]TAF4B [nucleoplasm]CDK7 [nucleoplasm]Aborted earlyelongation complexTAF13 [nucleoplasm]Pol II Initiationcomplex withphosphodiester-PPiintermediateTAF5 [nucleoplasm]TCEB2 [nucleoplasm]POLR2A [nucleoplasm]POLR2F(1-127)[nucleoplasm]SUPT4H1[nucleoplasm]NELFB [nucleoplasm]NELFCD [nucleoplasm]TAF4B [nucleoplasm]CDK7 [nucleoplasm]TAF9 [nucleoplasm]NELFA(2-528)[nucleoplasm]POLR2E [nucleoplasm]SRSF4 [nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2D(2-142)[nucleoplasm]CLP1 [nucleoplasm]GTF2A2 [nucleoplasm]PAPOLA(2-745)[nucleoplasm]SSRP1 [nucleoplasm]CDK7 [nucleoplasm]SLBP [nucleoplasm]ERCC3 [nucleoplasm]TCEB3 [nucleoplasm]CCNH [nucleoplasm]TCEB3 [nucleoplasm]POLR2B [nucleoplasm]CCNH [nucleoplasm]POLR2E [nucleoplasm]POLR2K [nucleoplasm]POLR2E [nucleoplasm]POLR2A [nucleoplasm]NCBP2 [nucleoplasm]NELFCD [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2D(2-142)[nucleoplasm]CCNH [nucleoplasm]CTDP1 [nucleoplasm]POLR2C [nucleoplasm]POLR2H [nucleoplasm]POLR2J [nucleoplasm]GTF2F2(2-249)[nucleoplasm]SRSF6 [nucleoplasm]TAF9 [nucleoplasm]POLR2I [nucleoplasm]NELFCD [nucleoplasm]POLR2K [nucleoplasm]SRSF7 [nucleoplasm]TAF13 [nucleoplasm]NELFA(2-528)[nucleoplasm]TBP [nucleoplasm]NELFB [nucleoplasm]GTF2H3 [nucleoplasm]POLR2H [nucleoplasm]POLR2D(2-142)[nucleoplasm]MNAT1 [nucleoplasm]MNAT1 [nucleoplasm]p-SUPT5H[nucleoplasm]TAF4B [nucleoplasm]ERCC2 [nucleoplasm]POLR2F(1-127)[nucleoplasm]CCNH [nucleoplasm]POLR2B [nucleoplasm]GTF2H1(2-548)[nucleoplasm]TCEB1 [nucleoplasm]PCF11 [nucleoplasm]POLR2I [nucleoplasm]Early elongationcomplex withhyperphosphorylatedPol II CTDTAF5 [nucleoplasm]TBP [nucleoplasm]POLR2J [nucleoplasm]CCNH [nucleoplasm]ERCC3 [nucleoplasm]CCNT1 [nucleoplasm]NUDT21 [nucleoplasm]TAF13 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2K [nucleoplasm]POLR2L [nucleoplasm]TAF12 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2D(2-142)[nucleoplasm]TAF13 [nucleoplasm]TCEB1 [nucleoplasm]NCBP1 [nucleoplasm]CE:Pol II CTD:Spt5complexU2AF2 [nucleoplasm]TAF4B [nucleoplasm]POLR2G [nucleoplasm]ZNF473 [nucleoplasm]POLR2J [nucleoplasm]GTF2H4 [nucleoplasm]p-S5-POLR2A[nucleoplasm]ERCC3 [nucleoplasm]p-S5-POLR2A[nucleoplasm]NUDT21 [nucleoplasm]CTDP1 [nucleoplasm]TAF4 [nucleoplasm]CDK7 [nucleoplasm]ERCC3 [nucleoplasm]CPSF3 [nucleoplasm]CDC40 [nucleoplasm]POLR2B [nucleoplasm]GTF2F1(2-517)[nucleoplasm]CPSF2 [nucleoplasm]POLR2K [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2E [nucleoplasm]NELFCD [nucleoplasm]POLR2C [nucleoplasm]NCBP1 [nucleoplasm]POLR2C [nucleoplasm]POLR2K [nucleoplasm]NCBP2 [nucleoplasm]TAF5 [nucleoplasm]TAF4B [nucleoplasm]SRSF1 [nucleoplasm]TAF5 [nucleoplasm]NELFA(2-528)[nucleoplasm]UTP [nucleoplasm]UTP [nucleoplasm]CDK7 [nucleoplasm]CSTF3 [nucleoplasm]POLR2B [nucleoplasm]POLR2L [nucleoplasm]GTF2H1(2-548)[nucleoplasm]TBP [nucleoplasm]POLR2J [nucleoplasm]POLR2K [nucleoplasm]CDK9 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]MNAT1 [nucleoplasm]p-S5-POLR2A[nucleoplasm]GTF2H4 [nucleoplasm]TAF13 [nucleoplasm]CCNH [nucleoplasm]NELFA(2-528)[nucleoplasm]GTF2E1 [nucleoplasm]ERCC3 [nucleoplasm]DNA containing PolII promoter withtranscript with 2 or3 nucleotidesPOLR2E [nucleoplasm]POLR2E [nucleoplasm]CTP [nucleoplasm]TFIIASNRPG [nucleoplasm]TAF11 [nucleoplasm]TAF11 [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2H [nucleoplasm]POLR2D(2-142)[nucleoplasm]ERCC3 [nucleoplasm]POLR2B [nucleoplasm]NFX.1 [nucleoplasm]CDK7 [nucleoplasm]POLR2K [nucleoplasm]GTF2A1(275-376)[nucleoplasm]NTPUTP [nucleoplasm]POLR2A [nucleoplasm]TAF12 [nucleoplasm]TAF4B [nucleoplasm]RNA Pol II(hypophosphorylated):cappedpre-mRNA complexTCEB1 [nucleoplasm]RBM8A [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2J [nucleoplasm]POLR2L [nucleoplasm]TCEB1 [nucleoplasm]POLR2I [nucleoplasm]POLR2I [nucleoplasm]POLR2H [nucleoplasm]CPSF2 [nucleoplasm]POLR2H [nucleoplasm]POLR2J [nucleoplasm]POLR2J [nucleoplasm]CTDP1 [nucleoplasm]GTF2H2 [nucleoplasm]ERCC2 [nucleoplasm]P-TEFb complexRNGTTPOLR2H [nucleoplasm]POLR2I [nucleoplasm]POLR2E [nucleoplasm]POLR2D(2-142)[nucleoplasm]SUPT4H1[nucleoplasm]TAF12 [nucleoplasm]CF IITAF12 [nucleoplasm]ERCC2 [nucleoplasm]CTDP1 [nucleoplasm]GTF2H3 [nucleoplasm]CTDP1 [nucleoplasm]CCNH [nucleoplasm]POLR2J [nucleoplasm]POLR2I [nucleoplasm]SRSF2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2J [nucleoplasm]GTF2H2 [nucleoplasm]ATP [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2K [nucleoplasm]TAF1 [nucleoplasm]TAF4 [nucleoplasm]TAF6 [nucleoplasm]MNAT1 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]GTF2H4 [nucleoplasm]SRSF2 [nucleoplasm]GTF2H4 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]NTPPOLR2I [nucleoplasm]Aborted elongationcomplex after arrestNCBP2 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]CDK9 [nucleoplasm]GTF2H2 [nucleoplasm]ERCC3 [nucleoplasm]PABPN1 [nucleoplasm]TAF1 [nucleoplasm]POLR2K [nucleoplasm]POLR2G [nucleoplasm]CPSF3 [nucleoplasm]POLR2L [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]CDK7 [nucleoplasm]cappedpre-mRNA:CBC:RNA PolII (phosphorylated)complexCTDP1 [nucleoplasm]CCNH [nucleoplasm]POLR2F(1-127)[nucleoplasm]NCBP2 [nucleoplasm]TAF10 [nucleoplasm]POLR2H [nucleoplasm]SRSF1 [nucleoplasm]POLR2K [nucleoplasm]SNRPD3 [nucleoplasm]NCBP2 [nucleoplasm]PiCDK7 [nucleoplasm]POLR2I [nucleoplasm]GTF2A2 [nucleoplasm]POLR2H [nucleoplasm]CCNT2 [nucleoplasm]SNRPF [nucleoplasm]TAF12 [nucleoplasm]TCEB1 [nucleoplasm]NELFA(2-528)[nucleoplasm]LSM11 [nucleoplasm]RNA Polymerase IIholoenzyme complex(hyperphosphorylated)POLR2G [nucleoplasm]POLR2J [nucleoplasm]TAF6 [nucleoplasm]POLR2L [nucleoplasm]POLR2I [nucleoplasm]MNAT1 [nucleoplasm]POLR2H [nucleoplasm]CTDP1 [nucleoplasm]TBP [nucleoplasm]POLR2L [nucleoplasm]GTF2H2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]TAF1 [nucleoplasm]MNAT1 [nucleoplasm]POLR2L [nucleoplasm]TAF6 [nucleoplasm]POLR2D(2-142)[nucleoplasm]NELFA(2-528)[nucleoplasm]GTF2H4 [nucleoplasm]POLR2E [nucleoplasm]POLR2D(2-142)[nucleoplasm]TFIIDPOLR2H [nucleoplasm]MNAT1 [nucleoplasm]CTP [nucleoplasm]TAF13 [nucleoplasm]MAGOH [nucleoplasm]POLR2E [nucleoplasm]CCNH [nucleoplasm]NELFE [nucleoplasm]ERCC2 [nucleoplasm]POLR2L [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2K [nucleoplasm]TAF4B [nucleoplasm]SSRP1 [nucleoplasm]POLR2B [nucleoplasm]NCBP2 [nucleoplasm]pol IIpromoter:TFIID:TFIIA:TFIIB:PolII:TFIIF complexTAF11 [nucleoplasm]GTF2H2 [nucleoplasm]CCNH [nucleoplasm]TBP [nucleoplasm]POLR2B [nucleoplasm]TAF13 [nucleoplasm]NTPMNAT1 [nucleoplasm]POLR2B [nucleoplasm]TAF10 [nucleoplasm]POLR2D(2-142)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]TCEB3 [nucleoplasm]POLR2H [nucleoplasm]CCNT2 [nucleoplasm]SUPT4H1[nucleoplasm]GTF2B [nucleoplasm]POLR2J [nucleoplasm]NELFA(2-528)[nucleoplasm]POLR2A [nucleoplasm]POLR2D(2-142)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]p-SUPT5H[nucleoplasm]GTF2F2(2-249)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]TAF11 [nucleoplasm]POLR2L [nucleoplasm]TBP [nucleoplasm]POLR2G [nucleoplasm]POLR2B [nucleoplasm]NELFCD [nucleoplasm]POLR2F(1-127)[nucleoplasm]CTDP1GTF2H2 [nucleoplasm]POLR2L [nucleoplasm]TCEB3 [nucleoplasm]POLR2J [nucleoplasm]POLR2G [nucleoplasm]GTF2H1(2-548)[nucleoplasm]GTF2A1(1-274)[nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]GTF2H3 [nucleoplasm]POLR2G [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]CDK9 [nucleoplasm]POLR2E [nucleoplasm]GTF2A2 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]PPiPOLR2H [nucleoplasm]POLR2G [nucleoplasm]POLR2D(2-142)[nucleoplasm]TCEB2 [nucleoplasm]POLR2B [nucleoplasm]CSTF1 [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2E2 [nucleoplasm]POLR2B [nucleoplasm]POLR2I [nucleoplasm]GTF2B [nucleoplasm]POLR2C [nucleoplasm]ERCC3 [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]SUPT4H1[nucleoplasm]POLR2J [nucleoplasm]POLR2I [nucleoplasm]POLR2J [nucleoplasm]GTF2E1 [nucleoplasm]POLR2H [nucleoplasm]POLR2H [nucleoplasm]CCNT1 [nucleoplasm]TCEA1 [nucleoplasm]TAF9 [nucleoplasm]SRSF11 [nucleoplasm]NELFEMAGOH [nucleoplasm]TAF1 [nucleoplasm]SRSF7 [nucleoplasm]ATPPOLR2K [nucleoplasm]POLR2E [nucleoplasm]GTF2H4 [nucleoplasm]POLR2C [nucleoplasm]POLR2L [nucleoplasm]POLR2H [nucleoplasm]POLR2B [nucleoplasm]Paused processiveelongation complexPPiPOLR2L [nucleoplasm]CPSF7 [nucleoplasm]GTF2H3 [nucleoplasm]GTF2H4 [nucleoplasm]SRSF9 [nucleoplasm]POLR2H [nucleoplasm]Capped IntronlessHistonepre-mRNA:CBC:ZFP100ComplexGTF2A1(275-376)[nucleoplasm]ERCC3 [nucleoplasm]POLR2L [nucleoplasm]TAF5 [nucleoplasm]POLR2I [nucleoplasm]POLR2H [nucleoplasm]POLR2K [nucleoplasm]TCEB1 [nucleoplasm]TCEA1 [nucleoplasm]TAF9 [nucleoplasm]Cap Binding Complex(CBC)TCEB1GTF2H3 [nucleoplasm]SUPT16H[nucleoplasm]CstFNELFA(2-528)pol II transcriptioncomplex containing4-9 nucleotide longtranscriptPOLR2A [nucleoplasm]p-S5-POLR2A[nucleoplasm]NELFA(2-528)[nucleoplasm]TAF6 [nucleoplasm]POLR2B [nucleoplasm]Pol II PromoterEscape ComplexPOLR2J [nucleoplasm]SNRPD3 [nucleoplasm]SUPT4H1[nucleoplasm]GTF2A1(1-274)[nucleoplasm]CTDP1 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]ERCC3 [nucleoplasm]POLR2C [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2L [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2C [nucleoplasm]TCEA1 [nucleoplasm]POLR2F(1-127)[nucleoplasm]GTF2H4 [nucleoplasm]ERCC3 [nucleoplasm]CDK7 [nucleoplasm]CCNH [nucleoplasm]POLR2L [nucleoplasm]GTF2B [nucleoplasm]POLR2B [nucleoplasm]CPSF1 [nucleoplasm]NELFB [nucleoplasm]POLR2K [nucleoplasm]POLR2H [nucleoplasm]CLP1 [nucleoplasm]TAF11 [nucleoplasm]ERCC3 [nucleoplasm]TAF4B [nucleoplasm]CDK9 [nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2G [nucleoplasm]ERCC3 [nucleoplasm]NCBP1 [nucleoplasm]CDK9 [nucleoplasm]MNAT1 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]TAF1 [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]RNGTT [nucleoplasm]POLR2K [nucleoplasm]pol II transcriptioncomplexMNAT1 [nucleoplasm]CCNH [nucleoplasm]RNA Pol II withphosphorylated CTD:CE complexTFIIHGTF2H3 [nucleoplasm]POLR2D(2-142)[nucleoplasm]p-SUPT5H[nucleoplasm]GTF2H2 [nucleoplasm]GTF2H4 [nucleoplasm]TAF12 [nucleoplasm]CTDP1 [nucleoplasm]SUPT4H1[nucleoplasm]CCNH [nucleoplasm]TAF6 [nucleoplasm]Pol II transcriptioncomplex containingtranscript to +30ERCC3 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2J [nucleoplasm]GTF2B [nucleoplasm]PPiNCBP1 [nucleoplasm]TAF11 [nucleoplasm]GTF2H3 [nucleoplasm]CDK9 [nucleoplasm]NTPGTF2H4 [nucleoplasm]TAF12 [nucleoplasm]TAF10 [nucleoplasm]GTF2A2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]ERCC2 [nucleoplasm]UPF3B [nucleoplasm]POLR2F(1-127)[nucleoplasm]NCBP2 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2L [nucleoplasm]POLR2K [nucleoplasm]NELFE [nucleoplasm]POLR2I [nucleoplasm]GTF2H2 [nucleoplasm]NELFE [nucleoplasm]TFIIEGTF2H1(2-548)[nucleoplasm]GTF2A1(275-376)[nucleoplasm]pol II transcriptioncomplex containing 9nucleotide longtranscriptERCC2 [nucleoplasm]CPSF3 [nucleoplasm]TAF12 [nucleoplasm]POLR2K [nucleoplasm]GTF2F2(2-249)[nucleoplasm]U2AF2 [nucleoplasm]POLR2D(2-142)[nucleoplasm]NTPGTF2H2 [nucleoplasm]POLR2A [nucleoplasm]SUPT16H[nucleoplasm]GTP [nucleoplasm]TAF4B [nucleoplasm]Elongation complexprior to separationCapped IntronlessHistonepre-mRNA:CBP80:CBP20:SLBP:ZFP100ComplexGTF2E2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]CCNH [nucleoplasm]POLR2F(1-127)[nucleoplasm]NCBP2 [nucleoplasm]SRSF11 [nucleoplasm]CPSF2 [nucleoplasm]SSRP1 [nucleoplasm]ERCC2 [nucleoplasm]Pol II transcriptioncomplex containingextruded transcriptto +30POLR2B [nucleoplasm]GTF2E2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2B [nucleoplasm]CDK7 [nucleoplasm]POLR2E [nucleoplasm]NELFB [nucleoplasm]POLR2B [nucleoplasm]ERCC2 [nucleoplasm]CDK7 [nucleoplasm]GTF2H4 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]NELFB [nucleoplasm]POLR2K [nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2C [nucleoplasm]RNMT [nucleoplasm]CTDP1 [nucleoplasm]GTF2A2 [nucleoplasm]DHX38 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]GTF2F1(2-517)[nucleoplasm]POLR2H [nucleoplasm]MNAT1 [nucleoplasm]p-SUPT5H[nucleoplasm]GTF2B [nucleoplasm]GTF2F1(2-517)[nucleoplasm]GTF2H3 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]POLR2E [nucleoplasm]TAF13 [nucleoplasm]TAF9 [nucleoplasm]POLR2L [nucleoplasm]UPF3B [nucleoplasm]POLR2J [nucleoplasm]NTPCDK7 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2L [nucleoplasm]template DNA:4-9nucleotidetranscript hybridGTF2F2(2-249)[nucleoplasm]p-S5-POLR2A[nucleoplasm]GTF2F2(2-249)[nucleoplasm]SRSF5 [nucleoplasm]NUDT21 [nucleoplasm]TAF5 [nucleoplasm]PAPOLA(2-745)[nucleoplasm]POLR2H [nucleoplasm]p-SUPT5H[nucleoplasm]GTF2A1(275-376)[nucleoplasm]GTF2F2(2-249)[nucleoplasm]ERCC3 [nucleoplasm]TAF5 [nucleoplasm]Mature Intronlesstranscript derivedHistonemRNA:SLBP:CBP80:CBP20MNAT1 [nucleoplasm]TAF9 [nucleoplasm]CSTF2(2-577)[nucleoplasm]CCNT1 [nucleoplasm]TFIIHGTF2H3 [nucleoplasm]GTF2A2 [nucleoplasm]GTF2H3 [nucleoplasm]GTF2A1(1-274)[nucleoplasm]POLR2E [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2G [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2K [nucleoplasm]NELFE [nucleoplasm]TAF6 [nucleoplasm]POLR2J [nucleoplasm]PABPN1 [nucleoplasm]TCEA1 [nucleoplasm]GTF2H2 [nucleoplasm]GTF2H3 [nucleoplasm]POLR2E [nucleoplasm]POLR2C [nucleoplasm]U2AF1 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]TBP [nucleoplasm]GTP [nucleoplasm]GTF2F2(2-249)[nucleoplasm]SNRPE [nucleoplasm]POLR2B [nucleoplasm]SNRPF [nucleoplasm]POLR2J [nucleoplasm]TAF4B [nucleoplasm]GTF2F1(2-517)[nucleoplasm]TAF4 [nucleoplasm]POLR2H [nucleoplasm]GTF2H1(2-548)[nucleoplasm]TAF5 [nucleoplasm]TAF12 [nucleoplasm]POLR2J [nucleoplasm]POLR2I [nucleoplasm]LSM10 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]POLR2L [nucleoplasm]POLR2J [nucleoplasm]POLR2G [nucleoplasm]GTF2A2 [nucleoplasm]POLR2C [nucleoplasm]NELFCD [nucleoplasm]POLR2K [nucleoplasm]GTF2H1(2-548)[nucleoplasm]NELFE [nucleoplasm]POLR2A [nucleoplasm]SRSF3 [nucleoplasm]GTF2BPOLR2L [nucleoplasm]POLR2L [nucleoplasm]GTF2H3 [nucleoplasm]TAF6 [nucleoplasm]POLR2G [nucleoplasm]GTP [nucleoplasm]NCBP2 [nucleoplasm]GTF2A1(275-376)[nucleoplasm]POLR2L [nucleoplasm]CCNT1 [nucleoplasm]TAF4 [nucleoplasm]ADPPOLR2B [nucleoplasm]POLR2G [nucleoplasm]POLR2C [nucleoplasm]SSRP1POLR2J [nucleoplasm]CCNH [nucleoplasm]RNA Pol II withphosphorylated CTD:CE complex withactivated GTpol II transcriptioncomplex containing11 nucleotide longtranscriptPOLR2F(1-127)[nucleoplasm]GTF2A2 [nucleoplasm]POLR2I [nucleoplasm]POLR2F(1-127)[nucleoplasm]CDC40 [nucleoplasm]CDK9 [nucleoplasm]RNPS1 [nucleoplasm]POLR2K [nucleoplasm]NTPPOLR2F(1-127)[nucleoplasm]GTF2H2 [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]POLR2C [nucleoplasm]template DNA withfirst transcriptdinucleotide, openedto +8 positionPOLR2G [nucleoplasm]POLR2A [nucleoplasm]POLR2L [nucleoplasm]CDK7 [nucleoplasm]POLR2K [nucleoplasm]TCEB2 [nucleoplasm]SUPT16H[nucleoplasm]TFIIHCSTF2(2-577)[nucleoplasm]POLR2C [nucleoplasm]CTP [nucleoplasm]POLR2E [nucleoplasm]p-S5-POLR2A[nucleoplasm]POLR2J [nucleoplasm]NELFB [nucleoplasm]POLR2D(2-142)[nucleoplasm]TAF4 [nucleoplasm]POLR2E [nucleoplasm]LSM10 [nucleoplasm]TAF12 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]Pol II initiationcomplexGTF2H3 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]SNRPE [nucleoplasm]GTF2H2 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]pol II transcriptioncomplex containing 3Nucleotide longtranscriptPOLR2A [nucleoplasm]POLR2A [nucleoplasm]TFIIHNCBP1 [nucleoplasm]POLR2D(2-142)[nucleoplasm]RNGTT [nucleoplasm]SSRP1 [nucleoplasm]POLR2I [nucleoplasm]POLR2D(2-142)[nucleoplasm]CDK9GTF2H4 [nucleoplasm]GTF2F1(2-517)[nucleoplasm]TAF4 [nucleoplasm]MNAT1 [nucleoplasm]ERCC3 [nucleoplasm]NTPERCC2 [nucleoplasm]NELFA(2-528)[nucleoplasm]ERCC3 [nucleoplasm]GTF2E2 [nucleoplasm]TAF10 [nucleoplasm]CPSF1 [nucleoplasm]TAF5 [nucleoplasm]GTF2E1 [nucleoplasm]TAF4 [nucleoplasm]NELFE [nucleoplasm]TAF5 [nucleoplasm]GTF2H1(2-548)[nucleoplasm]GTF2H4 [nucleoplasm]POLR2I [nucleoplasm]CDK7 [nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2C [nucleoplasm]POLR2E [nucleoplasm]GTF2F1(2-517)[nucleoplasm]MNAT1 [nucleoplasm]SUPT4H1[nucleoplasm]GTF2H4 [nucleoplasm]POLR2E [nucleoplasm]CPSF3 [nucleoplasm]p-S2,S5-POLR2A[nucleoplasm]GTF2F2(2-249)[nucleoplasm]POLR2F(1-127)[nucleoplasm]POLR2D(2-142)[nucleoplasm]POLR2B [nucleoplasm]NCBP2 [nucleoplasm]POLR2G [nucleoplasm]CLP1 [nucleoplasm]CCNH [nucleoplasm]TAF6 [nucleoplasm]TCEB1 [nucleoplasm]TAF1 [nucleoplasm]CDK9 [nucleoplasm]POLR2I [nucleoplasm]GTF2E1 [nucleoplasm]ERCC2 [nucleoplasm]POLR2J [nucleoplasm]POLR2G [nucleoplasm]TAF10 [nucleoplasm]POLR2I [nucleoplasm]TCEB2POLR2K [nucleoplasm]52314


Description

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Ontology Terms

 

Bibliography

View all...
  1. Martinez E, Ge H, Tao Y, Yuan CX, Palhan V, Roeder RG.; ''Novel cofactors and TFIIA mediate functional core promoter selectivity by the human TAFII150-containing TFIID complex.''; PubMed Europe PMC Scholia
  2. Mandal SS, Cho H, Kim S, Cabane K, Reinberg D.; ''FCP1, a phosphatase specific for the heptapeptide repeat of the largest subunit of RNA polymerase II, stimulates transcription elongation.''; PubMed Europe PMC Scholia
  3. Dvir A, Conaway RC, Conaway JW.; ''A role for TFIIH in controlling the activity of early RNA polymerase II elongation complexes.''; PubMed Europe PMC Scholia
  4. Kibel A, Iliopoulos O, DeCaprio JA, Kaelin WG.; ''Binding of the von Hippel-Lindau tumor suppressor protein to Elongin B and C.''; PubMed Europe PMC Scholia
  5. Roeder RG.; ''Transcriptional regulation and the role of diverse coactivators in animal cells.''; PubMed Europe PMC Scholia
  6. Rosenfeld MG, Lunyak VV, Glass CK.; ''Sensors and signals: a coactivator/corepressor/epigenetic code for integrating signal-dependent programs of transcriptional response.''; PubMed Europe PMC Scholia
  7. Mousson F, Kolkman A, Pijnappel WW, Timmers HT, Heck AJ.; ''Quantitative proteomics reveals regulation of dynamic components within TATA-binding protein (TBP) transcription complexes.''; PubMed Europe PMC Scholia
  8. Gnatt AL, Cramer P, Fu J, Bushnell DA, Kornberg RD.; ''Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 A resolution.''; PubMed Europe PMC Scholia
  9. Yu M, Yang W, Ni T, Tang Z, Nakadai T, Zhu J, Roeder RG.; ''RNA polymerase II-associated factor 1 regulates the release and phosphorylation of paused RNA polymerase II.''; PubMed Europe PMC Scholia
  10. Yao C, Choi EA, Weng L, Xie X, Wan J, Xing Y, Moresco JJ, Tu PG, Yates JR, Shi Y.; ''Overlapping and distinct functions of CstF64 and CstF64τ in mammalian mRNA 3' processing.''; PubMed Europe PMC Scholia
  11. Hernandez N.; ''Small nuclear RNA genes: a model system to study fundamental mechanisms of transcription.''; PubMed Europe PMC Scholia
  12. Bray SJ.; ''Notch signalling: a simple pathway becomes complex.''; PubMed Europe PMC Scholia
  13. Yamazaki K, Guo L, Sugahara K, Zhang C, Enzan H, Nakabeppu Y, Kitajima S, Aso T.; ''Identification and biochemical characterization of a novel transcription elongation factor, Elongin A3.''; PubMed Europe PMC Scholia
  14. Justice NJ, Jan YN.; ''Variations on the Notch pathway in neural development.''; PubMed Europe PMC Scholia
  15. Sims RJ, Belotserkovskaya R, Reinberg D.; ''Elongation by RNA polymerase II: the short and long of it.''; PubMed Europe PMC Scholia
  16. Pal M, McKean D, Luse DS.; ''Promoter clearance by RNA polymerase II is an extended, multistep process strongly affected by sequence.''; PubMed Europe PMC Scholia
  17. Holstege FC, Fiedler U, Timmers HT.; ''Three transitions in the RNA polymerase II transcription complex during initiation.''; PubMed Europe PMC Scholia
  18. Kadonaga JT.; ''Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors.''; PubMed Europe PMC Scholia
  19. Dvir A, Tan S, Conaway JW, Conaway RC.; ''Promoter escape by RNA polymerase II. Formation of an escape-competent transcriptional intermediate is a prerequisite for exit of polymerase from the promoter.''; PubMed Europe PMC Scholia
  20. Jawdekar GW, Henry RW.; ''Transcriptional regulation of human small nuclear RNA genes.''; PubMed Europe PMC Scholia
  21. Tirode F, Busso D, Coin F, Egly JM.; ''Reconstitution of the transcription factor TFIIH: assignment of functions for the three enzymatic subunits, XPB, XPD, and cdk7.''; PubMed Europe PMC Scholia
  22. Yoh SM, Cho H, Pickle L, Evans RM, Jones KA.; ''The Spt6 SH2 domain binds Ser2-P RNAPII to direct Iws1-dependent mRNA splicing and export.''; PubMed Europe PMC Scholia
  23. Wahle E, Rüegsegger U.; ''3'-End processing of pre-mRNA in eukaryotes.''; PubMed Europe PMC Scholia
  24. Van Arsdell SW, Weiner AM.; ''Human genes for U2 small nuclear RNA are tandemly repeated.''; PubMed Europe PMC Scholia
  25. Bertolotti A, Melot T, Acker J, Vigneron M, Delattre O, Tora L.; ''EWS, but not EWS-FLI-1, is associated with both TFIID and RNA polymerase II: interactions between two members of the TET family, EWS and hTAFII68, and subunits of TFIID and RNA polymerase II complexes.''; PubMed Europe PMC Scholia
  26. Duan DR, Pause A, Burgess WH, Aso T, Chen DY, Garrett KP, Conaway RC, Conaway JW, Linehan WM, Klausner RD.; ''Inhibition of transcription elongation by the VHL tumor suppressor protein.''; PubMed Europe PMC Scholia
  27. Maston GA, Evans SK, Green MR.; ''Transcriptional regulatory elements in the human genome.''; PubMed Europe PMC Scholia
  28. Gangloff YG, Pointud JC, Thuault S, Carré L, Romier C, Muratoglu S, Brand M, Tora L, Couderc JL, Davidson I.; ''The TFIID components human TAF(II)140 and Drosophila BIP2 (TAF(II)155) are novel metazoan homologues of yeast TAF(II)47 containing a histone fold and a PHD finger.''; PubMed Europe PMC Scholia
  29. Jacob GA, Luse SW, Luse DS.; ''Abortive initiation is increased only for the weakest members of a set of down mutants of the adenovirus 2 major late promoter.''; PubMed Europe PMC Scholia
  30. Kamakaka RT, Bulger M, Kadonaga JT.; ''Potentiation of RNA polymerase II transcription by Gal4-VP16 during but not after DNA replication and chromatin assembly.''; PubMed Europe PMC Scholia
  31. Frontini M, Soutoglou E, Argentini M, Bole-Feysot C, Jost B, Scheer E, Tora L.; ''TAF9b (formerly TAF9L) is a bona fide TAF that has unique and overlapping roles with TAF9.''; PubMed Europe PMC Scholia
  32. Yamaguchi Y, Takagi T, Wada T, Yano K, Furuya A, Sugimoto S, Hasegawa J, Handa H.; ''NELF, a multisubunit complex containing RD, cooperates with DSIF to repress RNA polymerase II elongation.''; PubMed Europe PMC Scholia
  33. Chen J, Wagner EJ.; ''snRNA 3' end formation: the dawn of the Integrator complex.''; PubMed Europe PMC Scholia
  34. O'Reilly D, Kuznetsova OV, Laitem C, Zaborowska J, Dienstbier M, Murphy S.; ''Human snRNA genes use polyadenylation factors to promote efficient transcription termination.''; PubMed Europe PMC Scholia
  35. Takagaki Y, Manley JL.; ''Complex protein interactions within the human polyadenylation machinery identify a novel component.''; PubMed Europe PMC Scholia
  36. Zhao J, Hyman L, Moore C.; ''Formation of mRNA 3' ends in eukaryotes: mechanism, regulation, and interrelationships with other steps in mRNA synthesis.''; PubMed Europe PMC Scholia
  37. Schultz P, Fribourg S, Poterszman A, Mallouh V, Moras D, Egly JM.; ''Molecular structure of human TFIIH.''; PubMed Europe PMC Scholia
  38. Zhou Z, Licklider LJ, Gygi SP, Reed R.; ''Comprehensive proteomic analysis of the human spliceosome.''; PubMed Europe PMC Scholia
  39. Egloff S, Dienstbier M, Murphy S.; ''Updating the RNA polymerase CTD code: adding gene-specific layers.''; PubMed Europe PMC Scholia
  40. Orphanides G, Lagrange T, Reinberg D.; ''The general transcription factors of RNA polymerase II.''; PubMed Europe PMC Scholia
  41. Hu D, Smith ER, Garruss AS, Mohaghegh N, Varberg JM, Lin C, Jackson J, Gao X, Saraf A, Florens L, Washburn MP, Eissenberg JC, Shilatifard A.; ''The little elongation complex functions at initiation and elongation phases of snRNA gene transcription.''; PubMed Europe PMC Scholia
  42. Barolo S, Posakony JW.; ''Three habits of highly effective signaling pathways: principles of transcriptional control by developmental cell signaling.''; PubMed Europe PMC Scholia
  43. Giglia-Mari G, Giglia-Mari G, Coin F, Ranish JA, Hoogstraten D, Theil A, Wijgers N, Jaspers NG, Raams A, Argentini M, van der Spek PJ, Botta E, Stefanini M, Egly JM, Aebersold R, Hoeijmakers JH, Vermeulen W.; ''A new, tenth subunit of TFIIH is responsible for the DNA repair syndrome trichothiodystrophy group A.''; PubMed Europe PMC Scholia
  44. Morris DP, Michelotti GA, Schwinn DA.; ''Evidence that phosphorylation of the RNA polymerase II carboxyl-terminal repeats is similar in yeast and humans.''; PubMed Europe PMC Scholia
  45. Bourbon HM, Aguilera A, Ansari AZ, Asturias FJ, Berk AJ, Bjorklund S, Blackwell TK, Borggrefe T, Carey M, Carlson M, Conaway JW, Conaway RC, Emmons SW, Fondell JD, Freedman LP, Fukasawa T, Gustafsson CM, Han M, He X, Herman PK, Hinnebusch AG, Holmberg S, Holstege FC, Jaehning JA, Kim YJ, Kuras L, Leutz A, Lis JT, Meisterernest M, Naar AM, Nasmyth K, Parvin JD, Ptashne M, Reinberg D, Ronne H, Sadowski I, Sakurai H, Sipiczki M, Sternberg PW, Stillman DJ, Strich R, Struhl K, Svejstrup JQ, Tuck S, Winston F, Roeder RG, Kornberg RD.; ''A unified nomenclature for protein subunits of mediator complexes linking transcriptional regulators to RNA polymerase II.''; PubMed Europe PMC Scholia
  46. Egloff S, Murphy S.; ''Role of the C-terminal domain of RNA polymerase II in expression of small nuclear RNA genes.''; PubMed Europe PMC Scholia
  47. Aso T, Lane WS, Conaway JW, Conaway RC.; ''Elongin (SIII): a multisubunit regulator of elongation by RNA polymerase II.''; PubMed Europe PMC Scholia
  48. Cramer P.; ''Structure and function of RNA polymerase II.''; PubMed Europe PMC Scholia
  49. Baillat D, Wagner EJ.; ''Integrator: surprisingly diverse functions in gene expression.''; PubMed Europe PMC Scholia
  50. Woudstra EC, Gilbert C, Fellows J, Jansen L, Brouwer J, Erdjument-Bromage H, Tempst P, Svejstrup JQ.; ''A Rad26-Def1 complex coordinates repair and RNA pol II proteolysis in response to DNA damage.''; PubMed Europe PMC Scholia
  51. Rachez C, Lemon BD, Suldan Z, Bromleigh V, Gamble M, Näär AM, Erdjument-Bromage H, Tempst P, Freedman LP.; ''Ligand-dependent transcription activation by nuclear receptors requires the DRIP complex.''; PubMed Europe PMC Scholia
  52. Louvi A, Artavanis-Tsakonas S.; ''Notch signalling in vertebrate neural development.''; PubMed Europe PMC Scholia
  53. Wada T, Takagi T, Yamaguchi Y, Ferdous A, Imai T, Hirose S, Sugimoto S, Yano K, Hartzog GA, Winston F, Buratowski S, Handa H.; ''DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs.''; PubMed Europe PMC Scholia
  54. Goodrich JA, Tjian R.; ''Transcription factors IIE and IIH and ATP hydrolysis direct promoter clearance by RNA polymerase II.''; PubMed Europe PMC Scholia
  55. Conaway JW, Florens L, Sato S, Tomomori-Sato C, Parmely TJ, Yao T, Swanson SK, Banks CA, Washburn MP, Conaway RC.; ''The mammalian Mediator complex.''; PubMed Europe PMC Scholia
  56. Shilatifard A, Conaway RC, Conaway JW.; ''The RNA polymerase II elongation complex.''; PubMed Europe PMC Scholia
  57. Fiedler U, Marc Timmers HT.; ''Peeling by binding or twisting by cranking: models for promoter opening and transcription initiation by RNA polymerase II.''; PubMed Europe PMC Scholia
  58. Bunick D, Zandomeni R, Ackerman S, Weinmann R.; ''Mechanism of RNA polymerase II--specific initiation of transcription in vitro: ATP requirement and uncapped runoff transcripts.''; PubMed Europe PMC Scholia
  59. Chen Y, Yamaguchi Y, Tsugeno Y, Yamamoto J, Yamada T, Nakamura M, Hisatake K, Handa H.; ''DSIF, the Paf1 complex, and Tat-SF1 have nonredundant, cooperative roles in RNA polymerase II elongation.''; PubMed Europe PMC Scholia
  60. Lin X, Taube R, Fujinaga K, Peterlin BM.; ''P-TEFb containing cyclin K and Cdk9 can activate transcription via RNA.''; PubMed Europe PMC Scholia
  61. Conaway RC, Conaway JW.; ''ATP activates transcription initiation from promoters by RNA polymerase II in a reversible step prior to RNA synthesis.''; PubMed Europe PMC Scholia
  62. Blazek E, Mittler G, Meisterernst M.; ''The mediator of RNA polymerase II.''; PubMed Europe PMC Scholia
  63. Wang W, Carey M, Gralla JD.; ''Polymerase II promoter activation: closed complex formation and ATP-driven start site opening.''; PubMed Europe PMC Scholia
  64. Hoffmann A, Roeder RG.; ''Cloning and characterization of human TAF20/15. Multiple interactions suggest a central role in TFIID complex formation.''; PubMed Europe PMC Scholia
  65. Gonatopoulos-Pournatzis T, Cowling VH.; ''Cap-binding complex (CBC).''; PubMed Europe PMC Scholia
  66. Rossignol M, Kolb-Cheynel I, Egly JM.; ''Substrate specificity of the cdk-activating kinase (CAK) is altered upon association with TFIIH.''; PubMed Europe PMC Scholia
  67. Orphanides G, LeRoy G, Chang CH, Luse DS, Reinberg D.; ''FACT, a factor that facilitates transcript elongation through nucleosomes.''; PubMed Europe PMC Scholia
  68. Egloff S, O'Reilly D, Murphy S.; ''Expression of human snRNA genes from beginning to end.''; PubMed Europe PMC Scholia
  69. Pavelitz T, Bailey AD, Elco CP, Weiner AM.; ''Human U2 snRNA genes exhibit a persistently open transcriptional state and promoter disassembly at metaphase.''; PubMed Europe PMC Scholia
  70. Malik S, Roeder RG.; ''Dynamic regulation of pol II transcription by the mammalian Mediator complex.''; PubMed Europe PMC Scholia
  71. Dominski Z, Erkmann JA, Yang X, Sànchez R, Marzluff WF.; ''A novel zinc finger protein is associated with U7 snRNP and interacts with the stem-loop binding protein in the histone pre-mRNP to stimulate 3'-end processing.''; PubMed Europe PMC Scholia
  72. Archambault J, Pan G, Dahmus GK, Cartier M, Marshall N, Zhang S, Dahmus ME, Greenblatt J.; ''FCP1, the RAP74-interacting subunit of a human protein phosphatase that dephosphorylates the carboxyl-terminal domain of RNA polymerase IIO.''; PubMed Europe PMC Scholia
  73. Buratowski S.; ''Progression through the RNA polymerase II CTD cycle.''; PubMed Europe PMC Scholia
  74. Schweisguth F.; ''Regulation of notch signaling activity.''; PubMed Europe PMC Scholia
  75. Aso T, Yamazaki K, Amimoto K, Kuroiwa A, Higashi H, Matsuda Y, Kitajima S, Hatakeyama M.; ''Identification and characterization of Elongin A2, a new member of the Elongin family of transcription elongation factors, specifically expressed in the testis.''; PubMed Europe PMC Scholia
  76. Pal M, Luse DS.; ''Strong natural pausing by RNA polymerase II within 10 bases of transcription start may result in repeated slippage and reextension of the nascent RNA.''; PubMed Europe PMC Scholia
  77. Parvin JD, Sharp PA.; ''DNA topology and a minimal set of basal factors for transcription by RNA polymerase II.''; PubMed Europe PMC Scholia
  78. Fiedler U, Timmers HT.; ''Analysis of the open region of RNA polymerase II transcription complexes in the early phase of elongation.''; PubMed Europe PMC Scholia
  79. Lin C, Smith ER, Takahashi H, Lai KC, Martin-Brown S, Florens L, Washburn MP, Conaway JW, Conaway RC, Shilatifard A.; ''AFF4, a component of the ELL/P-TEFb elongation complex and a shared subunit of MLL chimeras, can link transcription elongation to leukemia.''; PubMed Europe PMC Scholia
  80. Bernstein LB, Manser T, Weiner AM.; ''Human U1 small nuclear RNA genes: extensive conservation of flanking sequences suggests cycles of gene amplification and transposition.''; PubMed Europe PMC Scholia
  81. Kugel JF, Goodrich JA.; ''Translocation after synthesis of a four-nucleotide RNA commits RNA polymerase II to promoter escape.''; PubMed Europe PMC Scholia
  82. Hernandez N.; ''TBP, a universal eukaryotic transcription factor?''; PubMed Europe PMC Scholia
  83. Näär AM, Lemon BD, Tjian R.; ''Transcriptional coactivator complexes.''; PubMed Europe PMC Scholia
  84. Zawel L, Kumar KP, Reinberg D.; ''Recycling of the general transcription factors during RNA polymerase II transcription.''; PubMed Europe PMC Scholia
  85. Cramer P, Bushnell DA, Kornberg RD.; ''Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution.''; PubMed Europe PMC Scholia
  86. Schaeffer L, Roy R, Humbert S, Moncollin V, Vermeulen W, Hoeijmakers JH, Chambon P, Egly JM.; ''DNA repair helicase: a component of BTF2 (TFIIH) basic transcription factor.''; PubMed Europe PMC Scholia

History

View all...
CompareRevisionActionTimeUserComment
115030view16:57, 25 January 2021ReactomeTeamReactome version 75
113475view11:55, 2 November 2020ReactomeTeamReactome version 74
112674view16:06, 9 October 2020ReactomeTeamReactome version 73
101591view11:46, 1 November 2018ReactomeTeamreactome version 66
101127view21:31, 31 October 2018ReactomeTeamreactome version 65
100655view20:04, 31 October 2018ReactomeTeamreactome version 64
100205view16:49, 31 October 2018ReactomeTeamreactome version 63
99756view15:15, 31 October 2018ReactomeTeamreactome version 62 (2nd attempt)
99318view12:47, 31 October 2018ReactomeTeamreactome version 62
93793view13:36, 16 August 2017ReactomeTeamreactome version 61
93329view11:20, 9 August 2017ReactomeTeamreactome version 61
86414view09:17, 11 July 2016ReactomeTeamreactome version 56
83471view13:23, 18 November 2015ReactomeTeamVersion54
81416view12:56, 21 August 2015ReactomeTeamVersion53
76887view08:16, 17 July 2014ReactomeTeamFixed remaining interactions
76592view11:57, 16 July 2014ReactomeTeamFixed remaining interactions
75625view10:49, 10 June 2014ReactomeTeamReactome 48 Update
74980view13:50, 8 May 2014AnweshaFixing comment source for displaying WikiPathways description
74624view08:40, 30 April 2014ReactomeTeamReactome46
45042view18:59, 6 October 2011ThomasOntology Term : 'RNA Polymerase II transcription pathway' added !
42122view21:58, 4 March 2011MaintBotAutomatic update
39932view05:57, 21 January 2011MaintBotNew pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
3' end cleaved,

ligated exon

containing complex
ComplexREACT_3092 (Reactome)
ADPMetaboliteCHEBI:16761 (ChEBI)
ALYREF [nucleoplasm]ProteinQ86V81 (Uniprot-TrEMBL)
ATP [nucleoplasm]MetaboliteCHEBI:15422 (ChEBI)
ATPMetaboliteCHEBI:15422 (ChEBI)
Aborted early elongation complexComplexREACT_3362 (Reactome)
Aborted elongation complex after arrestComplexREACT_6654 (Reactome)
Arrested processive elongation complexComplexREACT_4675 (Reactome)
CCNH [nucleoplasm]ProteinP51946 (Uniprot-TrEMBL)
CCNT1 [nucleoplasm]ProteinO60563 (Uniprot-TrEMBL)
CCNT1ProteinO60563 (Uniprot-TrEMBL)
CCNT2 [nucleoplasm]ProteinO60583 (Uniprot-TrEMBL)
CCNT2ProteinO60583 (Uniprot-TrEMBL)
CDC40 [nucleoplasm]ProteinO60508 (Uniprot-TrEMBL)
CDK7 [nucleoplasm]ProteinP50613 (Uniprot-TrEMBL)
CDK9 [nucleoplasm]ProteinP50750 (Uniprot-TrEMBL)
CDK9ProteinP50750 (Uniprot-TrEMBL)
CE:Pol II CTD:Spt5 complexComplexREACT_2332 (Reactome) Spt5 reacts with Guanyl Transferase (GT) of the capping enzyme (CE).
CF IIComplexREACT_3772 (Reactome)
CF IComplexREACT_4896 (Reactome)
CLP1 [nucleoplasm]ProteinQ92989 (Uniprot-TrEMBL)
CPSF1 [nucleoplasm]ProteinQ10570 (Uniprot-TrEMBL)
CPSF2 [nucleoplasm]ProteinQ9P2I0 (Uniprot-TrEMBL)
CPSF3 [nucleoplasm]ProteinQ9UKF6 (Uniprot-TrEMBL)
CPSF7 [nucleoplasm]ProteinQ8N684 (Uniprot-TrEMBL)
CSTF1 [nucleoplasm]ProteinQ05048 (Uniprot-TrEMBL)
CSTF2(2-577) [nucleoplasm]ProteinP33240 (Uniprot-TrEMBL)
CSTF3 [nucleoplasm]ProteinQ12996 (Uniprot-TrEMBL)
CTDP1 [nucleoplasm]ProteinQ9Y5B0 (Uniprot-TrEMBL)
CTDP1ProteinQ9Y5B0 (Uniprot-TrEMBL)
CTP [nucleoplasm]MetaboliteCHEBI:17677 (ChEBI)
Cap Binding Complex (CBC)ComplexREACT_3884 (Reactome)
Capped Intronless

Histone pre-mRNA:CBC:ZFP100

Complex
ComplexREACT_5338 (Reactome)
Capped Intronless

Histone pre-mRNA:CBP80:CBP20:SLBP:ZFP100

Complex
ComplexREACT_3667 (Reactome)
CstFComplexREACT_3503 (Reactome)
DHX38 [nucleoplasm]ProteinQ92620 (Uniprot-TrEMBL)
DNA containing Pol

II promoter with transcript with 2 or

3 nucleotides
REACT_3936 (Reactome)
DNA containing RNA

Polymerase II

promoter
REACT_2835 (Reactome)
DSIF complexComplexREACT_2797 (Reactome)
DSIF:NELF:early elongation complexComplexREACT_4575 (Reactome)
ELL [nucleoplasm]ProteinP55199 (Uniprot-TrEMBL)
ELLProteinP55199 (Uniprot-TrEMBL)
ERCC2 [nucleoplasm]ProteinP18074 (Uniprot-TrEMBL)
ERCC3 [nucleoplasm]ProteinP19447 (Uniprot-TrEMBL)
Early elongation

complex with hyperphosphorylated

Pol II CTD
ComplexREACT_2481 (Reactome)
Elongation complex prior to separationComplexREACT_5853 (Reactome)
Elongation complex

with separated and

uncleaved transcript
ComplexREACT_5512 (Reactome)
Elongation complexComplexREACT_3511 (Reactome)
Elongin B:C complexComplexREACT_2434 (Reactome)
Elongin ComplexComplexREACT_5616 (Reactome)
FACT complexComplexREACT_4314 (Reactome)
GTF2A1(1-274) [nucleoplasm]ProteinP52655 (Uniprot-TrEMBL)
GTF2A1(275-376) [nucleoplasm]ProteinP52655 (Uniprot-TrEMBL)
GTF2A2 [nucleoplasm]ProteinP52657 (Uniprot-TrEMBL)
GTF2B [nucleoplasm]ProteinQ00403 (Uniprot-TrEMBL)
GTF2BProteinQ00403 (Uniprot-TrEMBL)
GTF2E1 [nucleoplasm]ProteinP29083 (Uniprot-TrEMBL)
GTF2E2 [nucleoplasm]ProteinP29084 (Uniprot-TrEMBL)
GTF2F1(2-517) [nucleoplasm]ProteinP35269 (Uniprot-TrEMBL)
GTF2F2(2-249) [nucleoplasm]ProteinP13984 (Uniprot-TrEMBL)
GTF2H1(2-548) [nucleoplasm]ProteinP32780 (Uniprot-TrEMBL)
GTF2H2 [nucleoplasm]ProteinQ13888 (Uniprot-TrEMBL)
GTF2H3 [nucleoplasm]ProteinQ13889 (Uniprot-TrEMBL)
GTF2H4 [nucleoplasm]ProteinQ92759 (Uniprot-TrEMBL)
GTP [nucleoplasm]MetaboliteCHEBI:15996 (ChEBI)
LSM10 [nucleoplasm]ProteinQ969L4 (Uniprot-TrEMBL)
LSM11 [nucleoplasm]ProteinP83369 (Uniprot-TrEMBL)
Ligated exon containing complexComplexREACT_5472 (Reactome)
MAGOH [nucleoplasm]ProteinP61326 (Uniprot-TrEMBL)
MNAT1 [nucleoplasm]ProteinP51948 (Uniprot-TrEMBL)
Mature Intronless

transcript derived Histone

mRNA:SLBP:CBP80:CBP20
ComplexREACT_3802 (Reactome)
Mature intronless

transcript derived Histone pre-mRNA:CBC

complex
ComplexREACT_5592 (Reactome)
NCBP1 [nucleoplasm]ProteinQ09161 (Uniprot-TrEMBL)
NCBP2 [nucleoplasm]ProteinP52298 (Uniprot-TrEMBL)
NELF complexComplexREACT_2737 (Reactome)
NELFA(2-528) [nucleoplasm]ProteinQ9H3P2 (Uniprot-TrEMBL)
NELFA(2-528)ProteinQ9H3P2 (Uniprot-TrEMBL)
NELFB [nucleoplasm]ProteinQ8WX92 (Uniprot-TrEMBL)
NELFBProteinQ8WX92 (Uniprot-TrEMBL)
NELFCD [nucleoplasm]ProteinQ8IXH7 (Uniprot-TrEMBL)
NELFCDProteinQ8IXH7 (Uniprot-TrEMBL)
NELFE [nucleoplasm]ProteinP18615 (Uniprot-TrEMBL)
NELFEProteinP18615 (Uniprot-TrEMBL)
NFX.1 [nucleoplasm]ProteinO43831 (Uniprot-TrEMBL)
NTPMetaboliteREACT_4491 (Reactome)
NUDT21 [nucleoplasm]ProteinO43809 (Uniprot-TrEMBL)
P-TEFb complexComplexREACT_3433 (Reactome)
PABPN1 [nucleoplasm]ProteinQ86U42 (Uniprot-TrEMBL)
PAPOLA(2-745) [nucleoplasm]ProteinP51003 (Uniprot-TrEMBL)
PCF11 [nucleoplasm]ProteinO94913 (Uniprot-TrEMBL)
POLR2A [nucleoplasm]ProteinP24928 (Uniprot-TrEMBL)
POLR2B [nucleoplasm]ProteinP30876 (Uniprot-TrEMBL)
POLR2C [nucleoplasm]ProteinP19387 (Uniprot-TrEMBL)
POLR2D(2-142) [nucleoplasm]ProteinO15514 (Uniprot-TrEMBL)
POLR2E [nucleoplasm]ProteinP19388 (Uniprot-TrEMBL)
POLR2F(1-127) [nucleoplasm]ProteinP61218 (Uniprot-TrEMBL)
POLR2G [nucleoplasm]ProteinP62487 (Uniprot-TrEMBL)
POLR2H [nucleoplasm]ProteinP52434 (Uniprot-TrEMBL)
POLR2I [nucleoplasm]ProteinP36954 (Uniprot-TrEMBL)
POLR2J [nucleoplasm]ProteinP52435 (Uniprot-TrEMBL)
POLR2K [nucleoplasm]ProteinP53803 (Uniprot-TrEMBL)
POLR2L [nucleoplasm]ProteinP62875 (Uniprot-TrEMBL)
PPiMetaboliteCHEBI:29888 (ChEBI)
Paused processive elongation complexComplexREACT_3066 (Reactome)
PiMetaboliteCHEBI:18367 (ChEBI)
Pol II Initiation

complex with phosphodiester-PPi

intermediate
ComplexREACT_2410 (Reactome)
Pol II Promoter Escape ComplexComplexREACT_3851 (Reactome)
Pol II initiation complexComplexREACT_5487 (Reactome)
Pol II transcription

complex containing extruded transcript

to +30
ComplexREACT_4335 (Reactome)
Pol II transcription

complex containing

transcript to +30
ComplexREACT_4399 (Reactome)
Pol II transcription

complex with (ser5) phosphorylated CTD containing extruded

transcript to +30
ComplexREACT_2595 (Reactome)
Processive elongation complexComplexREACT_3018 (Reactome)
RBM8A [nucleoplasm]ProteinQ9Y5S9 (Uniprot-TrEMBL)
RNA Pol II

(hypophosphorylated) complex bound to

DSIF protein
ComplexREACT_4417 (Reactome)
RNA Pol II

(hypophosphorylated):capped

pre-mRNA complex
ComplexREACT_5658 (Reactome)
RNA Pol II with

phosphorylated CTD: CE complex with

activated GT
ComplexREACT_3171 (Reactome)
RNA Pol II with

phosphorylated CTD:

CE complex
ComplexREACT_2371 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
ComplexREACT_2692 (Reactome)
RNA Polymerase II

holoenzyme complex

(hyperphosphorylated)
ComplexREACT_4889 (Reactome)
RNGTT [nucleoplasm]ProteinO60942 (Uniprot-TrEMBL)
RNGTTProteinO60942 (Uniprot-TrEMBL)
RNMT [nucleoplasm]ProteinO43148 (Uniprot-TrEMBL)
RNMTProteinO43148 (Uniprot-TrEMBL)
RNPS1 [nucleoplasm]ProteinQ15287 (Uniprot-TrEMBL)
SLBP [nucleoplasm]ProteinQ14493 (Uniprot-TrEMBL)
SNRPB [nucleoplasm]ProteinP14678 (Uniprot-TrEMBL)
SNRPD3 [nucleoplasm]ProteinP62318 (Uniprot-TrEMBL)
SNRPE [nucleoplasm]ProteinP62304 (Uniprot-TrEMBL)
SNRPF [nucleoplasm]ProteinP62306 (Uniprot-TrEMBL)
SNRPG [nucleoplasm]ProteinP62308 (Uniprot-TrEMBL)
SRRM1 [nucleoplasm]ProteinQ8IYB3 (Uniprot-TrEMBL)
SRSF1 [nucleoplasm]ProteinQ07955 (Uniprot-TrEMBL)
SRSF11 [nucleoplasm]ProteinQ05519 (Uniprot-TrEMBL)
SRSF2 [nucleoplasm]ProteinQ01130 (Uniprot-TrEMBL)
SRSF3 [nucleoplasm]ProteinP84103 (Uniprot-TrEMBL)
SRSF4 [nucleoplasm]ProteinQ08170 (Uniprot-TrEMBL)
SRSF5 [nucleoplasm]ProteinQ13243 (Uniprot-TrEMBL)
SRSF6 [nucleoplasm]ProteinQ13247 (Uniprot-TrEMBL)
SRSF7 [nucleoplasm]ProteinQ16629 (Uniprot-TrEMBL)
SRSF9 [nucleoplasm]ProteinQ13242 (Uniprot-TrEMBL)
SSRP1 [nucleoplasm]ProteinQ08945 (Uniprot-TrEMBL)
SSRP1ProteinQ08945 (Uniprot-TrEMBL)
SUPT16H [nucleoplasm]ProteinQ9Y5B9 (Uniprot-TrEMBL) DSIF is a heterodimer consisting of hSPT4 (human homolog of yeast Spt4- p14) and hSPT5 (human homolog of yeast Spt5-p160). DSIF association with Pol II may be enabled by Spt5 binding to Pol II creating a scaffold for NELF binding (Wada et al.,1998). Spt5 subunit of DSIF can be phosphorylated by P-TEFb.
SUPT16HProteinQ9Y5B9 (Uniprot-TrEMBL) DSIF is a heterodimer consisting of hSPT4 (human homolog of yeast Spt4- p14) and hSPT5 (human homolog of yeast Spt5-p160). DSIF association with Pol II may be enabled by Spt5 binding to Pol II creating a scaffold for NELF binding (Wada et al.,1998). Spt5 subunit of DSIF can be phosphorylated by P-TEFb.
SUPT4H1 [nucleoplasm]ProteinP63272 (Uniprot-TrEMBL)
SUPT4H1ProteinP63272 (Uniprot-TrEMBL)
TAF1 [nucleoplasm]ProteinP21675 (Uniprot-TrEMBL)
TAF10 [nucleoplasm]ProteinQ12962 (Uniprot-TrEMBL)
TAF11 [nucleoplasm]ProteinQ15544 (Uniprot-TrEMBL)
TAF12 [nucleoplasm]ProteinQ16514 (Uniprot-TrEMBL)
TAF13 [nucleoplasm]ProteinQ15543 (Uniprot-TrEMBL)
TAF4 [nucleoplasm]ProteinO00268 (Uniprot-TrEMBL)
TAF4B [nucleoplasm]ProteinQ92750 (Uniprot-TrEMBL)
TAF5 [nucleoplasm]ProteinQ15542 (Uniprot-TrEMBL)
TAF6 [nucleoplasm]ProteinP49848 (Uniprot-TrEMBL)
TAF9 [nucleoplasm]ProteinQ16594 (Uniprot-TrEMBL)
TBP [nucleoplasm]ProteinP20226 (Uniprot-TrEMBL)
TCEA1 [nucleoplasm]ProteinP23193 (Uniprot-TrEMBL)
TCEA1ProteinP23193 (Uniprot-TrEMBL)
TCEB1 [nucleoplasm]ProteinQ15369 (Uniprot-TrEMBL)
TCEB1ProteinQ15369 (Uniprot-TrEMBL)
TCEB2 [nucleoplasm]ProteinQ15370 (Uniprot-TrEMBL)
TCEB2ProteinQ15370 (Uniprot-TrEMBL)
TCEB3 [nucleoplasm]ProteinQ14241 (Uniprot-TrEMBL)
TCEB3ProteinQ14241 (Uniprot-TrEMBL)
TFIIAComplexREACT_5743 (Reactome)
TFIIDComplexREACT_5886 (Reactome)
TFIIEComplexREACT_2368 (Reactome)
TFIIFComplexREACT_4708 (Reactome)
TFIIHComplexREACT_3832 (Reactome)
U2AF1 [nucleoplasm]ProteinQ01081 (Uniprot-TrEMBL)
U2AF2 [nucleoplasm]ProteinP26368 (Uniprot-TrEMBL)
U7 snRNP:ZNF473ComplexREACT_5001 (Reactome)
UPF3B [nucleoplasm]ProteinQ9BZI7 (Uniprot-TrEMBL)
UTP [nucleoplasm]MetaboliteCHEBI:15713 (ChEBI)
ZNF473 [nucleoplasm]ProteinQ8WTR7 (Uniprot-TrEMBL)
capped

pre-mRNA:CBC:RNA Pol II (phosphorylated)

complex
ComplexREACT_3243 (Reactome)
damaged DNA

substrate:nascent

mRNA hybrid
REACT_3022 (Reactome)
downstream

intronless mRNA

fragment
REACT_3064 (Reactome)
intronless pre-mRNA cleavage complexComplexREACT_3895 (Reactome)
mRNA 3'-end cleavage factorComplexREACT_2642 (Reactome)
p-S2,S5-POLR2A [nucleoplasm]ProteinP24928 (Uniprot-TrEMBL)
p-S5-POLR2A [nucleoplasm]ProteinP24928 (Uniprot-TrEMBL)
p-SUPT5H [nucleoplasm]ProteinO00267 (Uniprot-TrEMBL)
p-SUPT5HProteinO00267 (Uniprot-TrEMBL)
pol II

promoter:TFIID

complex
ComplexREACT_5906 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB

complex
ComplexREACT_2339 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol

II:TFIIF complex
ComplexREACT_2469 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol II:TFIIF:TFIIE

complex
ComplexREACT_4404 (Reactome)
pol II closed

pre-initiation

complex
ComplexREACT_5734 (Reactome)
pol II open

pre-initiation

complex
ComplexREACT_4930 (Reactome)
pol II transcription

complex containing 11 nucleotide long

transcript
ComplexREACT_3183 (Reactome)
pol II transcription

complex containing 4-9 nucleotide long

transcript
ComplexREACT_3928 (Reactome)
pol II transcription

complex containing 3 Nucleotide long

transcript
ComplexREACT_3251 (Reactome)
pol II transcription

complex containing 4 nucleotide long

transcript
ComplexREACT_4148 (Reactome)
pol II transcription

complex containing 9 nucleotide long

transcript
ComplexREACT_5212 (Reactome)
pol II transcription complexComplexREACT_2954 (Reactome)
template DNA with

first transcript dinucleotide, opened

to +8 position
REACT_3318 (Reactome)
template DNA:4-9

nucleotide

transcript hybrid
REACT_3607 (Reactome)
upstream mRNA

fragment:CPSF:PAP:PABPN1

complex
ComplexREACT_3436 (Reactome)

Annotated Interactions

View all...
SourceTargetTypeDatabase referenceComment
3' end cleaved,

ligated exon

containing complex
ArrowREACT_1914 (Reactome)
ADPArrowREACT_1844 (Reactome)
ATPREACT_1844 (Reactome)
Aborted early elongation complexArrowREACT_989 (Reactome)
Aborted elongation complex after arrestArrowREACT_6355 (Reactome)
Arrested processive elongation complexArrowREACT_1645 (Reactome)
Arrested processive elongation complexREACT_1094 (Reactome)
Arrested processive elongation complexREACT_6355 (Reactome)
CCNT1REACT_307 (Reactome)
CCNT2REACT_307 (Reactome)
CDK9REACT_307 (Reactome)
CE:Pol II CTD:Spt5 complexArrowREACT_423 (Reactome)
CF IArrowREACT_1914 (Reactome)
CF IArrowREACT_460 (Reactome)
CF IIArrowREACT_1914 (Reactome)
CF IIArrowREACT_460 (Reactome)
CTDP1ArrowREACT_1138 (Reactome)
CTDP1REACT_1251 (Reactome)
CTDP1mim-catalysisREACT_1251 (Reactome)
Cap Binding Complex (CBC)ArrowREACT_2066 (Reactome)
Capped Intronless

Histone pre-mRNA:CBC:ZFP100

Complex
REACT_1222 (Reactome)
Capped Intronless

Histone pre-mRNA:CBP80:CBP20:SLBP:ZFP100

Complex
REACT_888 (Reactome)
CstFArrowREACT_1914 (Reactome)
CstFArrowREACT_460 (Reactome)
DNA containing Pol

II promoter with transcript with 2 or

3 nucleotides
ArrowREACT_543 (Reactome)
DNA containing RNA

Polymerase II

promoter
REACT_745 (Reactome)
DSIF complexArrowREACT_1138 (Reactome)
DSIF complexArrowREACT_1635 (Reactome)
DSIF complexREACT_802 (Reactome)
DSIF:NELF:early elongation complexArrowREACT_981 (Reactome)
DSIF:NELF:early elongation complexREACT_2066 (Reactome)
DSIF:NELF:early elongation complexREACT_989 (Reactome)
ELLArrowREACT_1138 (Reactome)
ELLREACT_949 (Reactome)
Early elongation

complex with hyperphosphorylated

Pol II CTD
ArrowREACT_2066 (Reactome)
Early elongation

complex with hyperphosphorylated

Pol II CTD
REACT_949 (Reactome)
Elongation complex prior to separationArrowREACT_2053 (Reactome)
Elongation complex prior to separationREACT_2030 (Reactome)
Elongation complex

with separated and

uncleaved transcript
ArrowREACT_2030 (Reactome)
Elongation complexArrowREACT_949 (Reactome)
Elongation complexREACT_751 (Reactome)
Elongin B:C complexArrowREACT_936 (Reactome)
Elongin B:C complexREACT_51 (Reactome)
Elongin ComplexArrowREACT_1138 (Reactome)
Elongin ComplexArrowREACT_51 (Reactome)
Elongin ComplexREACT_949 (Reactome)
FACT complexArrowREACT_1138 (Reactome)
FACT complexArrowREACT_294 (Reactome)
FACT complexREACT_949 (Reactome)
GTF2BArrowREACT_1817 (Reactome)
GTF2BArrowREACT_543 (Reactome)
GTF2BArrowREACT_653 (Reactome)
GTF2BREACT_266 (Reactome)
Ligated exon containing complexREACT_1914 (Reactome)
Mature Intronless

transcript derived Histone

mRNA:SLBP:CBP80:CBP20
ArrowREACT_888 (Reactome)
Mature intronless

transcript derived Histone pre-mRNA:CBC

complex
ArrowREACT_1222 (Reactome)
NELF complexArrowREACT_1138 (Reactome)
NELF complexArrowREACT_168 (Reactome)
NELF complexREACT_981 (Reactome)
NELFA(2-528)REACT_168 (Reactome)
NELFBREACT_168 (Reactome)
NELFCDREACT_168 (Reactome)
NELFEREACT_168 (Reactome)
NTPArrowREACT_1138 (Reactome)
NTPArrowREACT_2053 (Reactome)
NTPArrowREACT_981 (Reactome)
NTPREACT_1082 (Reactome)
NTPREACT_1160 (Reactome)
NTPREACT_1817 (Reactome)
NTPREACT_2053 (Reactome)
NTPREACT_209 (Reactome)
NTPREACT_40 (Reactome)
NTPREACT_581 (Reactome)
NTPREACT_751 (Reactome)
NTPREACT_981 (Reactome)
P-TEFb complexArrowREACT_1138 (Reactome)
P-TEFb complexArrowREACT_307 (Reactome)
P-TEFb complexREACT_2066 (Reactome)
P-TEFb complexmim-catalysisREACT_2066 (Reactome)
PPiArrowREACT_1055 (Reactome)
PPiArrowREACT_1082 (Reactome)
PPiArrowREACT_1817 (Reactome)
PPiArrowREACT_209 (Reactome)
PPiArrowREACT_40 (Reactome)
PPiArrowREACT_581 (Reactome)
Paused processive elongation complexArrowREACT_234 (Reactome)
Paused processive elongation complexREACT_1638 (Reactome)
PiArrowREACT_1844 (Reactome)
Pol II Initiation

complex with phosphodiester-PPi

intermediate
ArrowREACT_1467 (Reactome)
Pol II Initiation

complex with phosphodiester-PPi

intermediate
REACT_1055 (Reactome)
Pol II Promoter Escape ComplexREACT_543 (Reactome)
Pol II initiation complexArrowREACT_1160 (Reactome)
Pol II initiation complexREACT_1467 (Reactome)
Pol II transcription

complex containing extruded transcript

to +30
ArrowREACT_1567 (Reactome)
Pol II transcription

complex containing extruded transcript

to +30
REACT_1185 (Reactome)
Pol II transcription

complex containing

transcript to +30
ArrowREACT_209 (Reactome)
Pol II transcription

complex containing

transcript to +30
REACT_1567 (Reactome)
Pol II transcription

complex with (ser5) phosphorylated CTD containing extruded

transcript to +30
ArrowREACT_1185 (Reactome)
Pol II transcription

complex with (ser5) phosphorylated CTD containing extruded

transcript to +30
REACT_2233 (Reactome)
Processive elongation complexArrowREACT_1094 (Reactome)
Processive elongation complexArrowREACT_1638 (Reactome)
Processive elongation complexArrowREACT_751 (Reactome)
Processive elongation complexREACT_1138 (Reactome)
Processive elongation complexREACT_1645 (Reactome)
Processive elongation complexREACT_2053 (Reactome)
Processive elongation complexREACT_234 (Reactome)
REACT_1055 (Reactome) At the beginning of this reaction, 1 molecule of 'Pol II Initiation complex with phosphodiester-PPi intermediate' is present. At the end of this reaction, 1 molecule of 'pyrophosphate', and 1 molecule of 'pol II transcription complex' are present.

This reaction takes place in the 'nucleus'.

REACT_1082 (Reactome) Formation of phosphodiester bonds nine and ten creates RNA products, which do not dissociate from the RNA pol II initiation complex. The transcription complex has enter the productive elongation phase. TFIIH and ATP-hydrolysis are required for efficient promoter escape. The open region (“transcription bubble�) expands concomitant with the site of RNA-extension. The region upstream from the transcription start site (-9 to -3) collapses to the double-stranded state. TFIIH remains associated to the RNA pol II initiation complex.
REACT_1094 (Reactome) TFIIS reactivates arrested RNA Pol II directly interacting with the enzyme resulting in endonucleolytic excision of nascent transcript ~7-14 nucleotides upstream of the 3' end. This reaction is catalyzed by the catalytic site and results in the generation of a new 3'-OH terminus that could be used for re-extension from the correctly base paired site (reviewed by Shilatifard et al., 2003).
REACT_1138 (Reactome) At the beginning of this reaction, 1 molecule of 'Processive elongation complex' is present. At the end of this reaction, 1 molecule of 'DSIF complex', 1 molecule of 'FACT complex', 1 molecule of 'RNA Polymerase II holoenzyme complex (hyperphosphorylated)', 1 molecule of 'damaged DNA substrate:nascent mRNA hybrid', 1 molecule of 'Elongin Complex', 1 molecule of 'FCP1P protein', 1 molecule of 'P-TEFb complex', 1 molecule of 'NELF complex', 1 molecule of 'RNA polymerase II elongation factor ELL', 1 molecule of 'NTP', 1 molecule of 'TFIIS protein', and 1 molecule of 'TFIIF' are present.

This reaction takes place in the 'nucleus'.

REACT_1160 (Reactome) At the beginning of this reaction, 1 molecule of 'pol II open pre-initiation complex', and 2 molecules of 'NTP' are present. At the end of this reaction, 1 molecule of 'Pol II initiation complex' is present.

This reaction takes place in the 'nucleus'.

REACT_1185 (Reactome) Phosphorylation of serine 5 residue at the CTD of pol II largest subunit is an important step signaling the end of initiation and escape into processive elongation processes. Cdk7 protein subunit of TFIIH phosphorylates RNA Pol II CTD serine 5 residues on its heptad repeats.
REACT_1222 (Reactome) Processing is initiated once the U7 snRNP is loaded onto the pre-mRNA. The pre-mRNA HDE makes base-pairing contacts with the 5′ end of U7 snRNA. Binding of the U7 snRNP to the pre-mRNA is stabilized by interactions between a U7 snRNP protein, hZFP100 and other trans-acting factors, including the factor that catalyzes the cleavage reaction, which have yet to be defined. The cleavage occurs in the presence of EDTA as does the cleavage reaction in polyadenylation, it is likely that this reaction is catalyzed by a protein. There may well be additional proteins associated with the U7 snRNP, since the in vitro processing occurs in the absence of SLBP, it is possible that all the other factors required for processing are associated with the active form of the U7 snRNP.
REACT_1251 (Reactome) FCP1 dephosphorylates RNAP II in ternary elongation complexes as well as in solution and, therefore, is thought to function in the recycling of RNAP II during the transcription cycle. Biochemical experiments suggest that human FCP1 targets CTDs that are phosphorylated at serine 2 (CTD-serine 2) and/or CTD-serine 5. It is also observed to stimulate elongation independent of its catalytic activity. Dephosphorylation of Ser2 - phosphorylated Pol II results in hypophosphorylated form that disengages capping enzymes (CE).
REACT_1467 (Reactome) At the beginning of this reaction, 1 molecule of 'Pol II initiation complex' is present. At the end of this reaction, 1 molecule of 'Pol II Initiation complex with phosphodiester-PPi intermediate' is present.

This reaction takes place in the 'nucleus'.

REACT_1567 (Reactome) At the beginning of this reaction, 1 molecule of 'Pol II transcription complex containing transcript to +30' is present. At the end of this reaction, 1 molecule of 'Pol II transcription complex containing extruded transcript to +30' is present.

This reaction takes place in the 'nucleus'.

REACT_1635 (Reactome) At the beginning of this reaction, 1 molecule of 'SUPT5H protein', and 1 molecule of 'SPT4H1 protein' are present. At the end of this reaction, 1 molecule of 'DSIF complex' is present.

This reaction takes place in the 'nucleus'.

REACT_1638 (Reactome) Recovery from pausing occurs spontaneously after a variable length of time as the enzyme spontaneously slides forward again. This renders the transcript's 3'-OH terminus realigned with the catalytic Mg2+ site of the enzyme. TFIIS is capable of excising the nascent transcript at 2 or 3 nucleotides upstream of the transcript's 3'-end to reinitiate processive elongation (reviewed by Shilatifard et al., 2003).
REACT_1645 (Reactome) RNA Pol II arrest is believed to be a result of irreversible backsliding of the enzyme by ~7-14 nucleotides. It is suggested that, arrest leads to extrusion of displaced transcripts 3'-end through the small pore near the Mg2+ ion. Pol II arrest may lead to abortive termination of elongation due to irreversible trapping of the 3'-end of the displaced transcript in the pore (reviewed by Shilatifard et al., 2003).
REACT_1684 (Reactome) The general transcription factor TFIIF has a high affinity for the RNA Polymerase II holoenzyme. TFIIF stabilizes the preinitiation complex, and suppresses non-specific binding of RNA Pol II to DNA, and is thus critical for start site recognition.
REACT_168 (Reactome) At the beginning of this reaction, 1 molecule of 'NELF-A protein', 1 molecule of 'RD protein', 1 molecule of 'NELF-B protein', and 1 molecule of 'NELF-C/D protein' are present. At the end of this reaction, 1 molecule of 'NELF complex' is present.

This reaction takes place in the 'nucleus'.

REACT_1702 (Reactome) At the beginning of this reaction, 1 molecule of 'pol II open pre-initiation complex' is present. At the end of this reaction, 1 molecule of 'pol II closed pre-initiation complex' is present.

This reaction takes place in the 'nucleus'.

REACT_1793 (Reactome) At the beginning of this reaction, 1 molecule of 'pol II transcription complex containing 4-9 nucleotide long transcript' is present. At the end of this reaction, 1 molecule of 'template DNA:4-9 nucleotide transcript hybrid', 1 molecule of 'TFIIH', 1 molecule of 'TFIIE', and 1 molecule of 'RNA Polymerase II (unphosphorylated):TFIIF complex' are present.

This reaction takes place in the 'nucleus'.

REACT_1817 (Reactome) Formation of the third phosphodiester bond creates a 4-nt product. This commits the initiation complex to promoter escape. The short 4-nt transcript is still loosely associated with the RNA polymerase II initiation complex and can dissociate to yield abortive products, which are not further extended. Inhibition of ATP-hydrolysis by TFIIH does not lead to collapse of the open region any longer. The transcription complex has lost the sensitivity to single-stranded oligo-nucleotide inhibition. However, ATP-hydrolysis and TFIIH are required for efficient promoter escape. The open region (“transcription bubble�) expands concomitant with the site of RNA-extension. In this case this region spans positions -9 to +4.
REACT_1821 (Reactome) Factor TFIIE enters the preinitiation complex after TFIIF recruits RNA Polymerase II. TFIIE is composed of two subunits of 56 kDA and 34 kDa. TFIIE facilitates the recruitment of factor TFIIH to the preinitiation complex, and it also stimulates the phosphorylation of the RNA Polymerase II CTD by TFIIH.
REACT_1844 (Reactome) After assembly of the complete RNA polymerase II-preinitiation complex, the next step is separation of the two DNA strands. This isomerization step is known as the closed-to-open complex transition and occurs prior to the initiation of mRNA synthesis. In the RNA polymerase II system this step requires the hydrolysis of ATP or dATP into Pi and ADP or dADP (in contrast to the other RNA polymerase systems) and is catalyzed by the XPB subunit of TFIIH. The region of the promoter, which becomes single-stranded , spans from –10 to +2 relative to the transcription start site.

Negative supercoiling in the promoter region probably induces transient opening events and can alleviate requirement of TFIIE, TFIIH and ATP-hydrolysis for open complex formation. ATP is also used in this step by the cdk7-subunit of TFIIH to phosphorylate the heptad repeats of the C-terminal domain of the largest subunit of RNA polymerase II (RPB1) on serine-2

REACT_1914 (Reactome) Endonucleolytic cleavage separates the pre-mRNA into an upstream fragment destined to become the mature mRNA, and a downstream fragment that is rapidly degraded. Cleavage depends on two signals in the RNA, a highly conserved hexanucleotide, AAUAAA, 10 to 30 nucleotides upstream of the cleavage site, and a poorly conserved GU- or U-rich downstream element. Additional sequences, often upstream of AAUAAA, can enhance the efficiency of the reaction. Cleavage occurs most often after a CA dinucleotide. A single gene can have more than one 3' processing site.

Cleavage is preceded by the assembly of a large processing complex, the composition of which is poorly defined. ATP, but not its hydrolysis, is required for assembly. Cleavage at the 3'-end of mRNAs depends on a number of protein factors. CPSF, a heterotetramer, binds specifically to the AAUAAA sequence. The heterotrimer CstF binds the downstream element. CF I, which appears to be composed of two subunits, one of several related larger polypeptides and a common smaller one, also binds RNA, but with unknown specificity. RNA recognition by these proteins is cooperative. Cleavage also requires CF II, composed of at least two subunits, and poly(A) polymerase, the enzyme synthesizing the poly(A) tail in the second step of the reaction. The polypeptide catalyzing the hydrolysis of the phosphodiester bond remains to be identified.

Cleavage produces a 3'-OH on the upstream fragment and a 5'-phosphate on the downstream fragment. At some unknown point after cleavage, the downstream RNA fragment, CstF, CF I and CF II are thought to be released, whereas CPSF and poly(A) polymerase remain to carry out polyadenylation.

REACT_2030 (Reactome) At the beginning of this reaction, 1 molecule of 'Elongation complex prior to separation' is present. At the end of this reaction, 1 molecule of 'Elongation complex with separated and uncleaved transcript' is present.

This reaction takes place in the 'nucleus'.

REACT_2053 (Reactome) At the beginning of this reaction, 1 molecule of 'Processive elongation complex', and 1 molecule of 'NTP' are present. At the end of this reaction, 1 molecule of 'Elongation complex prior to separation', and 1 molecule of 'NTP' are present.

This reaction takes place in the 'nucleus'.

REACT_2066 (Reactome) Cdk-9 is the kinase subunit of P-TEFb that phosphorylates Serine 2 on the heptapeptide repeats of Pol II CTD alleviating the negative action of DSIF-NELF complex. This reaction is considered to be a rate limiting step for processive elongation. P-TEFb complex, that has a DRB-sensitive cyclin-dependent kinase activity, is composed of ~43 kDa, Cdk9 kinase (PITALRE), and either Cyclin T1, Cyclin T2a, Cyclin T2b, or Cyclin K. The exact mechanism by which P-TEFb removes the inhibition of elongation by DSIF-NELF is not yet known. P-TEFb is also capable of phosphorylating Spt5 subunit of DSIF complex.
A P-TEFb complex (which contains only the Cyclin T1) is implicated in the efficient synthesis of human immunodeficiency virus-1 (HIV-1) transcripts. Cyclin T1 subunit of the P-TEFb(Cyclin T1:Cdk9) complex interacts with HIV-1 encoded Tat protein that binds to the transactivation response (TAR) element in the nascent HIV-1 transcript (reviewed in Price,2000).
The mechanism by which DSIF, NELF and P-TEFb or TAK/P-TEFb act together in Pol II-regulated elongation is yet to be fully understood. Various biochemical evidences point to a model in which DSIF and NELF negatively regulate elongation through interactions with polymerase containing a hypophosphorylated CTD. Subsequent phosphorylation of the Pol II CTD by P-TEFb might promote elongation by inhibiting interactions of DSIF and NELF with the elongation complex.

REACT_209 (Reactome) RNA polymerase II transcription complexes are susceptible to transcriptional stalling and arrest, when extending nascent transcripts to 30-nt. This susceptibility depends on presence on down-stream DNA, the particular DNA-sequence of the template and presence of transcription factors. Transcription factor TFIIH remains associated to the RNA pol II elongation complex until position +30. At this stage transcription elongation factor TFIIS can rescue stalled transcription elongation complexes. The transcription bubble varies between 13- and 22-nt in size.
REACT_2233 (Reactome) At the beginning of this reaction, 1 molecule of 'mRNA capping enzyme', and 1 molecule of 'Pol II transcription complex with (ser5) phosphorylated CTD containing extruded transcript to +30' are present. At the end of this reaction, 1 molecule of 'RNA Pol II with phosphorylated CTD: CE complex' is present.

This reaction takes place in the 'nucleus'.

REACT_234 (Reactome) Pol II pausing is believed to result from reversible backtracking of the Pol II enzyme complex by ~2 to 4 nucleotides. This leads to misaligned 3'-OH terminus that is unable to be an acceptor for the incoming NTPs in synthesis of next phosphodiester bond (reviewed by Shilatifard et al., 2003).
REACT_266 (Reactome) The general transcription factor TFIIB is a single polypeptide of approximately 35 kDa. There is a Zn-binding domain near the N terminus of TFIIB, and the C-terminal domain encompasses two imperfect repeats; between the N and C termini is a phylogenetically conserved region. The C terminus interacts with TBP and RNA Polymerase II, whereas the N terminus interacts with factor TFIIF and RNA polymerase II. TFIIB is a sequence-specific factor, and it interacts with the BRE element within the promoter.

TFIIB interacts with the Rpb1 subunit of RNA polymerase II to define transcription strat sites. Several activators directly bind TFIIB, and stimulate transcription. The N-terminus and the C-terminus can participate in intramolecular interactions, and this can be disrupted by specific activators by causing a conformational change in TFIIB.

TFIIA also binds the preinitiation complex along with TFIIB. However, TFIIA is not required for accurate initiation, but rather functions as a coactivator of transcription.

REACT_294 (Reactome) At the beginning of this reaction, 1 molecule of 'FACT 140 kDa subunit', and 1 molecule of 'FACT 80 kDa subunit' are present. At the end of this reaction, 1 molecule of 'FACT complex' is present.

This reaction takes place in the 'nucleus'.

REACT_307 (Reactome) At the beginning of this reaction, 1 molecule of 'Cdk 9 protein', 1 molecule of 'Cyclin T1', and 1 molecule of 'Cyclin T2' are present. At the end of this reaction, 1 molecule of 'P-TEFb complex' is present.

This reaction takes place in the 'nucleus'.

REACT_40 (Reactome) Formation of the second phosphodiester bond creates a 3-nt product. This short transcript is still loosely associated with the RNA polymerase II initiation complex and can dissociate to yield abortive products, which are not further extended. The transcription complex still requires continued ATP-hydrolysis by TFIIH and remains sensitive to single-stranded oligo-nucleotide inhibition.

The open region (“transcription bubble�) expands concomitant with the site of RNA-extension. In this case this region spans positions -9 to +3.

REACT_423 (Reactome) The capping enzyme interacts with the Spt5 subunit of transcription elongation factor DSIF. This interaction may couple the capping reaction with promoter escape or elongation, thereby acting as a “checkpoint� to assure that capping has occurred before the polymerase proceeds to make the rest of the transcript.
REACT_460 (Reactome) The polypeptide catalyzing the hydrolysis of the phosphodiester bond remains to be identified. Cleavage produces a 3'-OH on the upstream fragment and a 5'-phosphate on the downstream fragment. At some unknown point after cleavage, the downstream fragment, CstF, CF I and CF II are thought to be released, whereas CPSF and poly(A) polymerase remain to carry out polyadenylation.
REACT_51 (Reactome) At the beginning of this reaction, 1 molecule of 'Elongin A1 protein', and 1 molecule of 'Elongin B:C complex' are present. At the end of this reaction, 1 molecule of 'Elongin Complex' is present.

This reaction takes place in the 'nucleus'.

REACT_543 (Reactome) At the beginning of this reaction, 1 molecule of 'Pol II Promoter Escape Complex' is present. At the end of this reaction, 1 molecule of 'TFIIA', 1 molecule of 'TFIIH', 1 molecule of 'TFIIE', 1 molecule of 'TFIID', 1 molecule of 'TFIIB', 1 molecule of 'RNA Polymerase II (unphosphorylated):TFIIF complex', and 1 molecule of 'DNA containing Pol II promoter with transcript with 2 or 3 nucleotides' are present.

This reaction takes place in the 'nucleus'.

REACT_581 (Reactome) Formation of the second phosphodiester bond creates a 3-nt product. This transcript is still loosely associated with the RNA polymerase II initiation complex and can dissociate to yield abortive products, which are not further extended. At this stage pausing by RNA polymerase II may result in repeated slippage and reextension of the nascent RNA. The transcription complex still requires continued ATP-hydrolysis by TFIIH for efficient promoter escape. Basal transcription factor TFIIE dissociates from the initiation complex before position +10.

Basal transcription factor TFIIF may reassociate and can stimulate transcription elongation at multiple stages. The open region (“transcription bubble�) expands concomitant with the site of RNA-extension, eventually reaching an open region from -9 to +9.

REACT_632 (Reactome) The binding of TFIIH completes the assembly of the preinitiation complex (PIC) for RNA Polymerase II transcription. Although RNA polymerase binds the TATA box on the promoter DNA, no initiation of transcription occurs until TFIIH is bound to the PIC. TFIIH is the only factor with known enzymatic activities.
REACT_6355 (Reactome) At the beginning of this reaction, 1 molecule of 'Arrested processive elongation complex' is present. At the end of this reaction, 1 molecule of 'Aborted elongation complex after arrest' is present.

This reaction takes place in the 'nucleus'.

REACT_653 (Reactome) At the beginning of this reaction, 1 molecule of 'pol II transcription complex' is present. At the end of this reaction, 1 molecule of 'TFIIA', 1 molecule of 'TFIIH', 1 molecule of 'TFIIE', 1 molecule of 'TFIID', 1 molecule of 'TFIIB', 1 molecule of 'RNA Polymerase II (unphosphorylated):TFIIF complex', and 1 molecule of 'template DNA with first transcript dinucleotide, opened to +8 position' are present.

This reaction takes place in the 'nucleus'.

REACT_745 (Reactome) Although TBP (TATA box binding factor) is necessary and sufficient for initiation of basal transcription, the other subunits of the general transcription factor TFIID, the TBP-associated factors, are required for response to transcriptional activators. TBP binds to the TATA box (a core promoter element), and bends the DNA 80 degrees toward the major groove. This conformation of TBP-TATA box provides the proper topology for the binding of the general transcription factor TFIIB.

Transcriptional activators function by affecting the kinetics of binding of TBP to the promoter DNA.

REACT_751 (Reactome) High-resolution structures of free, catalytically active yeast Pol II and of an elongating form reveal that Pol II elongation complex includes features like:
- RNA-DNA hybrid, an unwound template ahead of 3'-OH terminus of growing transcript and an exit groove at the base of the CTD, possibly for dynamic interaction of processing and transcriptional factors.
- a cleft or channel created by Rpb1 and Rpb2 subunits to accommodate DNA template, extending to Mg2+ ion located deep in the enzyme core
-a 50 kDa "clamp" with open confirmation in free polymerase, allowing entry of DNA strands but closed in the processive elongation phase.
The clamp is composed of portions of Rpb1,Rpb2 and Rpb3 , five loops or "switches" that change from unfolded to well-folded structures stabilizing the elongation complex, and a long "bridging helix" that emanates from Rpb1 subunit, crossing near the Mg2+ ion. The bridging helix is thought to "bend" to push on the base pair at the 3'-end of RNA-DNA hybrid like a ratchet, translocating Pol II along the DNA (Cramer et al.,2001; Gnatt et al.,2001).In addition to its dynamic biochemical potential, Pol II possess a repertoire of functions to serve as a critical platform of recruiting and coordinating the actions of a host of additional enzyme and proteins involved in various pathways.

REACT_802 (Reactome) DSIF is a heterodimer consisting of hSPT4 (human homolog of yeast Spt4- p14) and hSPT5 (human homolog of yeast Spt5-p160). DSIF association with Pol II may be enabled by Spt5 binding to Pol II creating a scaffold for NELF binding (Wada et al.,1998). Spt5 subunit of DSIF can be phosphorylated by P-TEFb.
REACT_888 (Reactome) Processing is initiated once the SLBP (bound to the stem loop) and the U7 snRNP (bound to the HDE) are both loaded onto the pre-mRNA. The pre-mRNA HDE makes base-pairing contacts with the 5′ end of U7 snRNA. Binding of the U7 snRNP to the pre-mRNA is stabilized by interactions between a U7 snRNP protein, hZFP100 and SLBP. It should be noted that there must be other trans-acting factors, including the factor that catalyzes the cleavage reaction, which have yet to be defined. The cleavage occurs in the presence of EDTA as does the cleavage reaction in polyadenylation, it is likely that this reaction is catalyzed by a protein. There may well be additional proteins associated with the U7 snRNP, and since in some conditions in vitro processing occurs in the absence of SLBP, it is possible that all the other factors required for processing are associated with the active form of the U7 snRNP.
REACT_893 (Reactome) At the beginning of this reaction, 1 molecule of 'RNA Pol II with phosphorylated CTD: CE complex' is present. At the end of this reaction, 1 molecule of 'RNA Pol II with phosphorylated CTD: CE complex with activated GT' is present.

This reaction takes place in the 'nucleus'.

REACT_936 (Reactome) At the beginning of this reaction, 1 molecule of 'Elongin B protein', and 1 molecule of 'Elongin C protein' are present. At the end of this reaction, 1 molecule of 'Elongin B:C complex' is present.

This reaction takes place in the 'nucleus'.

REACT_949 (Reactome) At the beginning of this reaction, 1 molecule of 'FACT complex', 1 molecule of 'Elongin Complex', 1 molecule of 'Early elongation complex with hyperphosphorylated Pol II CTD', 1 molecule of 'TFIIH', 1 molecule of 'RNA polymerase II elongation factor ELL', and 1 molecule of 'TFIIS protein' are present. At the end of this reaction, 1 molecule of 'Elongation complex' is present.

This reaction takes place in the 'nucleus'.

REACT_981 (Reactome) NELF complex is a ~ 300 kDa multiprotein complex composed of 5 peptides (A - E): ~66,61,59,58 and 46 kDa. All these peptides are required for NELF-mediated inhibition of Pol II elongation. NELF complex has been reported to bind to the pre-formed DSIF:RNA Pol II complex that may act as a scaffold for its binding. NELF-A is suspected to be involved in Wolf-Hirschhorn syndrome.
Binding of DSIF:NELF to RNA Pol II CTD results in abortive termination of early elongation steps by the growing transcripts.
REACT_989 (Reactome) In the early elongation phase, shorter transcripts typically of ~30 nt in length are generated due to random termination of elongating nascent transcripts. This abortive cessation of elongation has been observed mainly in the presence of DSIF-NELF bound to Pol II complex. (Reviewed in Conaway et al.,2000; Shilatifard et al., 2003 ).
RNA Pol II

(hypophosphorylated) complex bound to

DSIF protein
ArrowREACT_802 (Reactome)
RNA Pol II

(hypophosphorylated) complex bound to

DSIF protein
REACT_981 (Reactome)
RNA Pol II

(hypophosphorylated):capped

pre-mRNA complex
ArrowREACT_1251 (Reactome)
RNA Pol II

(hypophosphorylated):capped

pre-mRNA complex
REACT_802 (Reactome)
RNA Pol II with

phosphorylated CTD: CE complex with

activated GT
ArrowREACT_893 (Reactome)
RNA Pol II with

phosphorylated CTD: CE complex with

activated GT
REACT_423 (Reactome)
RNA Pol II with

phosphorylated CTD:

CE complex
ArrowREACT_2233 (Reactome)
RNA Pol II with

phosphorylated CTD:

CE complex
REACT_893 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
ArrowREACT_1793 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
ArrowREACT_543 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
ArrowREACT_653 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
REACT_1684 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
mim-catalysisREACT_1082 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
mim-catalysisREACT_1817 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
mim-catalysisREACT_209 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
mim-catalysisREACT_40 (Reactome)
RNA Polymerase II

(unphosphorylated):TFIIF

complex
mim-catalysisREACT_581 (Reactome)
RNA Polymerase II

holoenzyme complex

(hyperphosphorylated)
ArrowREACT_1138 (Reactome)
RNGTTREACT_2233 (Reactome)
RNMTREACT_423 (Reactome)
SSRP1REACT_294 (Reactome)
SUPT16HREACT_294 (Reactome)
SUPT4H1REACT_1635 (Reactome)
TCEA1ArrowREACT_1138 (Reactome)
TCEA1REACT_949 (Reactome)
TCEB1REACT_936 (Reactome)
TCEB2REACT_936 (Reactome)
TCEB3REACT_51 (Reactome)
TFIIAArrowREACT_543 (Reactome)
TFIIAArrowREACT_581 (Reactome)
TFIIAArrowREACT_653 (Reactome)
TFIIAREACT_266 (Reactome)
TFIIDArrowREACT_543 (Reactome)
TFIIDArrowREACT_581 (Reactome)
TFIIDArrowREACT_653 (Reactome)
TFIIDREACT_745 (Reactome)
TFIIEArrowREACT_1793 (Reactome)
TFIIEArrowREACT_543 (Reactome)
TFIIEArrowREACT_581 (Reactome)
TFIIEArrowREACT_653 (Reactome)
TFIIEREACT_1821 (Reactome)
TFIIFArrowREACT_1138 (Reactome)
TFIIHArrowREACT_1251 (Reactome)
TFIIHArrowREACT_1793 (Reactome)
TFIIHArrowREACT_543 (Reactome)
TFIIHArrowREACT_653 (Reactome)
TFIIHArrowREACT_751 (Reactome)
TFIIHREACT_1251 (Reactome)
TFIIHREACT_632 (Reactome)
TFIIHREACT_949 (Reactome)
TFIIHmim-catalysisREACT_1185 (Reactome)
TFIIHmim-catalysisREACT_1817 (Reactome)
TFIIHmim-catalysisREACT_1844 (Reactome)
TFIIHmim-catalysisREACT_40 (Reactome)
U7 snRNP:ZNF473ArrowREACT_1222 (Reactome)
U7 snRNP:ZNF473ArrowREACT_888 (Reactome)
capped

pre-mRNA:CBC:RNA Pol II (phosphorylated)

complex
REACT_1251 (Reactome)
damaged DNA

substrate:nascent

mRNA hybrid
ArrowREACT_1138 (Reactome)
downstream

intronless mRNA

fragment
ArrowREACT_460 (Reactome)
intronless pre-mRNA cleavage complexREACT_460 (Reactome)
mRNA 3'-end cleavage factormim-catalysisREACT_1914 (Reactome)
p-SUPT5HREACT_1635 (Reactome)
p-SUPT5HREACT_423 (Reactome)
pol II

promoter:TFIID

complex
ArrowREACT_745 (Reactome)
pol II

promoter:TFIID

complex
REACT_266 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB

complex
ArrowREACT_266 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB

complex
REACT_1684 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol

II:TFIIF complex
ArrowREACT_1684 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol

II:TFIIF complex
REACT_1821 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol II:TFIIF:TFIIE

complex
ArrowREACT_1821 (Reactome)
pol II

promoter:TFIID:TFIIA:TFIIB:Pol II:TFIIF:TFIIE

complex
REACT_632 (Reactome)
pol II closed

pre-initiation

complex
ArrowREACT_1702 (Reactome)
pol II closed

pre-initiation

complex
ArrowREACT_632 (Reactome)
pol II closed

pre-initiation

complex
REACT_1844 (Reactome)
pol II open

pre-initiation

complex
ArrowREACT_1844 (Reactome)
pol II open

pre-initiation

complex
REACT_1160 (Reactome)
pol II open

pre-initiation

complex
REACT_1702 (Reactome)
pol II transcription

complex containing 11 nucleotide long

transcript
ArrowREACT_1082 (Reactome)
pol II transcription

complex containing 11 nucleotide long

transcript
REACT_209 (Reactome)
pol II transcription

complex containing 4-9 nucleotide long

transcript
REACT_1793 (Reactome)
pol II transcription

complex containing 3 Nucleotide long

transcript
ArrowREACT_40 (Reactome)
pol II transcription

complex containing 3 Nucleotide long

transcript
REACT_1817 (Reactome)
pol II transcription

complex containing 4 nucleotide long

transcript
ArrowREACT_1817 (Reactome)
pol II transcription

complex containing 4 nucleotide long

transcript
REACT_581 (Reactome)
pol II transcription

complex containing 9 nucleotide long

transcript
ArrowREACT_581 (Reactome)
pol II transcription

complex containing 9 nucleotide long

transcript
REACT_1082 (Reactome)
pol II transcription complexArrowREACT_1055 (Reactome)
pol II transcription complexREACT_40 (Reactome)
pol II transcription complexREACT_653 (Reactome)
template DNA with

first transcript dinucleotide, opened

to +8 position
ArrowREACT_653 (Reactome)
template DNA:4-9

nucleotide

transcript hybrid
ArrowREACT_1793 (Reactome)
upstream mRNA

fragment:CPSF:PAP:PABPN1

complex
ArrowREACT_460 (Reactome)
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