ライフサイエンスコーパス: cotranscriptional

1 demonstrating that they are not exclusively cotranscriptional.

2 gesting that splicing is more efficient when cotranscriptional.

3 ip1) gene-specific splicing is predominantly cotranscriptional.

4 phosphorylation by Ctk1 recruits factors for cotranscriptional 3' end processing in vivo.

5 lts indicate that Rpb4 contributes to proper cotranscriptional 3'-end processing in vivo.

6 I (Pol II) transcription sites to facilitate cotranscriptional 5'-capping of pre-mRNA and other Pol I

7 Here we assess cotranscriptional A-to-I editing in Drosophila by isolat

8 tivity by KLFs reflects sequestration of the cotranscriptional activator CBP/p300, making this cofact

9 9 increases the affinity of a well-described cotranscriptional activator of nuclear hormone receptors

10 o acid reduces beta-catenin phosphorylation, cotranscriptional activity, and stability.

11 The snRNPs display patterns that indicate a cotranscriptional assembly model: U1 first, then U2, and

12 These results suggest a mechanism for cotranscriptional assembly of the export competent mRNP

13 tylation and deacetylation facilitate proper cotranscriptional association of spliceosomal snRNPs.

14 analysis suggests that Spt6 is required for cotranscriptional association of the factor Ctr9, a memb

15 ulation of transcription by Abd1 may enhance cotranscriptional capping and also act as a checkpoint t

16 inal domain results in a drastic decrease in cotranscriptional capping efficiency but is reversed by

17 d have suggested a checkpoint model in which cotranscriptional capping is a necessary step for the ea

18 Cotranscriptional capping of HIV mRNA is strongly stimul

19 nt phosphorylation of RNAP II CTD stimulates cotranscriptional capping of HIV-1 mRNA.

20 ation factor Spt5 are thought to orchestrate cotranscriptional capping of nascent mRNAs.

21 ind the phosphorylated pol II CTD permitting cotranscriptional capping of nascent pre-mRNAs.

22 and functions as an important checkpoint in cotranscriptional capping of RNA polymerase II (Pol II)

23 f the Pol II largest subunit (CTD), allowing cotranscriptional capping of the nascent pre-mRNA.

24 The process uncouples cotranscriptional chromatin remodeling by dTip60 complex

25 bp4 compromised SSU processome formation and cotranscriptional cleavage of the pre-rRNA.

26 cleavage at the poly(A) site or at a second cotranscriptional cleavage site (CoTC).

27 Following depletion of Rrp5, cotranscriptional cleavage was lost and preribosome comp

28 been demonstrated or suggested to involve a cotranscriptional component.

29 ntitatively modulate gene expression through cotranscriptional coupling mechanisms.

30 Regulated cotranscriptional decapping near promoter-proximal pause

31 Cotranscriptional degradation of nascent RNA has not bee

32 nucleases, Rat1 and Xrn1, both contribute to cotranscriptional degradation of nascent RNA, but this d

33 cues within nascent transcripts, specify the cotranscriptional engagement of the relevant RNA process

34 mRNA capping is a cotranscriptional event mediated by the association of c

35 n yeast, histone H2B monoubiquitination is a cotranscriptional event regulating histone H3 methylatio

36 The function of cotranscriptional events in the selection of alternative

37 of different poly(A) sites, suggesting that cotranscriptional events may influence the decision betw

38 eptapeptides and connects transcription with cotranscriptional events.

39 ting alternative RNA folds, are sensitive to cotranscriptional events.

40 The prp8 mutation perturbs a cotranscriptional feedback mechanism linking COOLAIR pro

41 consistent with the experimental data and a cotranscriptional folding and assembly hypothesis were g

42 oped an optical-trapping assay to follow the cotranscriptional folding of a nascent RNA and used it t

43 econd crucial ingredient of the model is the cotranscriptional folding of the RNA transcript, sterica

44 well with RNA folding energies obtained from cotranscriptional folding simulations.

45 hat lattices can be made by annealing and/or cotranscriptional folding.

46 enable the precise mapping of events during cotranscriptional folding.

47 nce of CGI promoters that is revealed by the cotranscriptional formation of R loop structures.

48 ite of phosphorylation important for EBNA2's cotranscriptional function in mitosis.

49 identify ERI-1 as an important regulator of cotranscriptional gene silencing and post-transcriptiona

50 ns in deacetylating histones and suppressing cotranscriptional histone eviction.

51 de changes in Ser5-P CTD phosphorylation and cotranscriptional histone H3 lysine 36 trimethylation (H

52 Cotranscriptional histone methylations by Set1 and Set2

53 of the Paf1 complex, which regulates several cotranscriptional histone modifications, and Chd1, a chr

54 s, ranging from RNA Polymerase II pausing to cotranscriptional histone modifications.

55 ral mechanisms, including the stimulation of cotranscriptional histone modifications.

56 d, but are generally accepted to be post- or cotranscriptional in character.

57 ng frame, gives rise to the C protein, while cotranscriptional insertion of an extra base gives rise

58 imize transcription elongation, coordinating cotranscriptional interactions of many factors/snoRNAs w

59 RNA folding, such as molecular crowding and cotranscriptional kinetic effects, may ultimately lead t

60 Cotranscriptional loading of RNA processing factors onto

61 t did not impair RNA Pol II transcription or cotranscriptional m(7)G capping.

62 g from an insufficiency in components of the cotranscriptional machinery.

63 UAP56 and NXF1, essential components of the cotranscriptional machinery.

64 gest that Naf1p and Cbf5p are recruited in a cotranscriptional manner during H/ACA snoRNP assembly, p

65 In this issue, Munoz et al. uncover a cotranscriptional mechanism for activating alternative p

66 together, our results are consistent with a cotranscriptional mechanism for generating the cap 4 str

67 ense splicing increases FLC expression via a cotranscriptional mechanism involving capping of the FLC

68 binding of Spt6 to Ser2-P RNAPII provides a cotranscriptional mechanism to recruit Iws1, REF1/Aly, a

69 Cotranscriptional methylation of histone H3 lysines 4 an

70 The cotranscriptional mRNA processing and packaging reaction

71 ssociates with genes to facilitate efficient cotranscriptional mRNA processing.

72 rase II initiation and elongation as well as cotranscriptional mRNA processing.

73 Additional experiments suggest cotranscriptional PCPA counteracted by U1 association wi

74 The cotranscriptional placement of the 7-methylguanosine cap

75 el mouse models to further examine roles for cotranscriptional/post-transcriptional gene regulation d

76 a critical role for H2B deubiquitination in cotranscriptional pre-mRNA processing events.

77 criptional elongation is required for normal cotranscriptional pre-mRNA splicing.

78 ferentially inhibits super-enhancer-directed cotranscriptional pri-miRNA processing.

79 ted an evolutionarily conserved function for cotranscriptional processes in the maintenance of genome

80 ring the coordination of DNA replication and cotranscriptional processes.

81 Taken together, cotranscriptional processing and stability of a set of s

82 The role of cotranscriptional processing by RNA interference and by

83 Finally, we present evidence that cotranscriptional processing events determine the recrui

84 tes chromatin modifications and suggest that cotranscriptional processing events play a primary role

85 a model in which hypoxia-induced changes to cotranscriptional processing lead to selective retention

86 ude that CDK11 plays a critical role for the cotranscriptional processing of all HIV mRNA species.

87 Thus, CDK12 plays an important role in cotranscriptional processing of c-FOS transcripts.

88 ription complex for efficient elongation and cotranscriptional processing of mRNA.

89 stimulates RNA polymerase II elongation and cotranscriptional processing of pre-mRNA.

90 on of serine 7 was shown to be important for cotranscriptional processing of two snRNAs in mammalian

91 iated transcription-replication conflicts by cotranscriptional protein engagement of nascent RNA is e

92 an TH1- or TH2-skewing cell culture systems, cotranscriptional R-loops (RNA/DNA duplex and displaced

93 In this study, we found that cotranscriptional R-loops formed at a CAG-70 repeat inse

94 clin T components of P-TEFb are required for cotranscriptional recognition of the 3' box RNA 3' end p

95 S) and Set3C deacetylation activities, their cotranscriptional recruitment is stimulated by the phosp

96 otein (TBP) block mRNA export, implying that cotranscriptional recruitment of Npl3 is required for ef

97 Cotranscriptional recruitment of pre-mRNA splicing facto

98 These findings support a model whereby cotranscriptional recruitment of Rnf20 at MLL-fusion tar

99 However, how the cotranscriptional recruitment of splicing factors is reg

100 that Npl3 promotes splicing by facilitating cotranscriptional recruitment of splicing factors.

101 provide evidence that the mechanism involves cotranscriptional recruitment of SR proteins to RNAP II

102 longation complex, which functions in direct cotranscriptional recruitment of the mRNA export protein

103 In contrast, the cotranscriptional recruitment of the RNA-binding protein

104 this as a fail-safe mechanism to ensure the cotranscriptional recruitment of TRAMP before or during

105 riptional snRNP recruitment and suggest that cotranscriptional recruitment of U2 or the tri-snRNP is

106 ospho-CTD is likely involved directly in the cotranscriptional recruitment of Yra1.

107 dies of active genes, arguing against simple cotranscriptional recruitment to RNA substrates.

108 imulating the degradation process upon their cotranscriptional recruitment.

109 domains of life and plays many key roles in cotranscriptional regulation and in recruiting other fac

110 This review discusses the multiple layers of cotranscriptional regulation of alternative splicing in

111 ignal is required for efficient termination, cotranscriptional RNA cleavage at the poly(A) site is no

112 urthermore, the phenomena of termination and cotranscriptional RNA cleavage can be uncoupled, and the

113 g establish the roles of the poly(A) signal, cotranscriptional RNA cleavage events, and 5'-3' exonucl

114 resulting in termination and, in some cases, cotranscriptional RNA cleavage.

115 However, the experimental study of cotranscriptional RNA folding has been limited by the la

116 Cotranscriptional RNA processing and surveillance factor

117 ng chromatin recruitment and activation of a cotranscriptional RNA processing enzyme, Xrn2.

118 majority of genes seemed normal in terms of cotranscriptional RNA processing events, although there

119 ation, Pol II escape, productive elongation, cotranscriptional RNA processing, and termination.

120 role in the regulation of transcription and cotranscriptional RNA processing.

121 ggest a role for CBX3 in aiding in efficient cotranscriptional RNA processing.

122 onents, suggesting its function in efficient cotranscriptional RNA processing.

123 ted DNA-RNA hybrid; and (iii) changes in the cotranscriptional RNA secondary structure upstream of th

124 r DNA structures, 'G-loops', which contain a cotranscriptional RNA: DNA hybrid on the C-rich strand a

125 activity, thus suggesting a transcriptional/cotranscriptional role for IFN-gamma/IFNGR1 as well as a

126 ing that Bur1 is not a significant source of cotranscriptional Rpb1 phosphorylation.

127 To address this, we previously developed cotranscriptional selective 2-hydroxyl acylation analyze

128 Herein, we use full-length RNA and cotranscriptional self-cleavage assays to compare reacti

129 Here, we improve the broad applicability of cotranscriptional SHAPE-Seq by developing a sequence-ind

130 ributed biotin-SAv roadblocks can be used in cotranscriptional SHAPE-Seq experiments to identify the

131 strengths of each transcription roadblock in cotranscriptional SHAPE-Seq.

132 to nascent messenger RNA transcripts causes cotranscriptional silencing of the source locus and the

133 at splicing efficiency has a major impact on cotranscriptional snRNP recruitment and suggest that cot

134 Although splicing catalysis is frequently cotranscriptional, some introns are excised after polyad

135 wever, the influence of chromatin factors on cotranscriptional splice site usage remains unclear.

136 ociated with prespliceosome formation during cotranscriptional spliceosome assembly.

137 These studies show that cotranscriptional spliceosome rearrangements are driven

138 des DIRAS3, provides an example of imprinted cotranscriptional splicing and a potential model system

139 RNA polymerase II elongation increases both cotranscriptional splicing and splicing efficiency and t

140 fficiency and that faster elongation reduces cotranscriptional splicing and splicing efficiency in bu

141 These results suggest that the cotranscriptional splicing apparatus influences establis

142 However, evidence for cotranscriptional splicing as well as for coupling betwe

143 Importantly, introns with low cotranscriptional splicing efficiencies are present in t

144 To determine the prevalence of cotranscriptional splicing in Drosophila, we sequenced n

145 The analysis also indicates that cotranscriptional splicing is less efficient for first i

146 munoprecipitation (ChIP) assay, we show that cotranscriptional splicing occurs approximately 1 kb aft

147 itination by USP49 is required for efficient cotranscriptional splicing of a large set of exons.

148 e data suggest that H2A.Z occupancy promotes cotranscriptional splicing of suboptimal introns that ma

149 rains Deltadst1 and Deltapaf1 show different cotranscriptional splicing phenotypes, suggesting that d

150 The kinetic model of cotranscriptional splicing suggests that slow elongation

151 n contrast, U2 snRNP recruitment, as well as cotranscriptional splicing, is deficient on short second

152 Consistent with the kinetic model of cotranscriptional splicing, the rapid RNAPII elongation

153 efficient splicing signals are critical for cotranscriptional splicing.

154 percent of the introns assayed manifest >50% cotranscriptional splicing.

155 g is imposed by a checkpoint associated with cotranscriptional splicing.

156 epletion of individual components shows that cotranscriptional SSU processome formation is a sensitiv

157 st cellular genes but has a modest effect on cotranscriptional termination.

158 Because RNA editing is cotranscriptional, the mtRNAP is implicated in RNA editi

159 Such a placement would enable efficient cotranscriptional translation and facile transertion of

160 ts of DNA replication, RNA transcription and cotranscriptional translation of membrane proteins cause

161 spatial separation of DNA and ribosomes with cotranscriptional translation.

162 recruitment from transcription, suggest that cotranscriptional U1 recruitment contributes to optimal

163 Cotranscriptional ubiquitination of histone H2B is key t