ライフサイエンスコーパス: branch site

1 nal extension serving as the major SUMO-SUMO branch site.

2 uires YUA, where Y = pyrimidine and A is the branch site.

3 found a variable distance downstream of the branch site.

4 ntervening sequence, IVS) boundaries and the branch site.

5 valent attachment of a 3' splice site to the branch site.

6 ensus sequences at the intron boundaries and branch site.

7 ts U2 small nuclear ribonucleoprotein to the branch site.

8 ring is involved in marking the prospective branch site.

9 ',5'-branched RNA with any nucleotide at the branch site.

10 dependent upon its position relative to the branch site.

11 nt and is maintained postnatally at arterial branch sites.

12 a function for microtubules in selecting new branch sites.

13 calizes preferentially to neuronal dendritic branch sites.

14 ria are often associated with age-associated branch sites.

15 ryo and is postnatally sustained at arterial branch sites.

16 ipheral domains in growth cones and emerging branch sites.

17 ginal alpha-phosphate can be attacked by the branch-site 2'-hydroxyl group; in the latter case, the l

18 ing ligation reaction is between an internal branch-site 2'-hydroxyl nucleophile on one RNA substrate

19 he dynamic associations of proteins with the branch site-3' splice site region during spliceosome ass

20 nitor RNA-protein interactions involving the branch site-3' splice site-3' exon region during yeast p

21 n Prp8p also associates extensively with the branch site-3' splice site-3' exon region.

22 icing occurs via a lariat intermediate whose branch site A residue is predicted to bulge from a duple

23 The 3'-tail emerging from the branch-site A may have indefinite length, but it must be

24 Interactions at the branch site adenosine and requirements for polypyrimidin

25 the discovery that the distance between the branch site adenosine and the acceptor site ranges from

26 on to promote the bulged conformation of the branch site adenosine and to enhance catalysis by snRNAs

27 antisense effect; moreover, only the 3'-most branch site adenosine served as the branch point.

28 complex, and specific interactions with the branch site adenosine.

29 he major groove surrounding the 2'-OH of the branch site adenosine.

30 nd 9F21 deoxyribozymes mediate reaction of a branch-site adenosine 2'-hydroxyl on one RNA substrate w

31 isiae, in which a conserved psi extrudes the branch-site adenosine from the helix.

32 Because the branch-site adenosine is a bulged nucleotide flanked by

33 An unanswered question is whether the use of branch-site adenosine is inherently preferred or a chanc

34 yzes formation of 2',5'-branched RNA using a branch-site adenosine nucleophile and a 5'-triphosphate

35 embles natural RNA splicing instead prefer a branch-site adenosine, although adenosine was never avai

36 ding the mechanism of the recognition of the branch-site adenosine.

37 Previously we showed that when the branch site and 3' splice site AG are supplied by separa

38 tranded RNA (ssRNA) sequence adjacent to the branch site and can block the action of debranchase enzy

39 tions were introduced in the vicinity of the branch site and surrounding domains.

40 de or alterations in the spacing between the branch site and the 3' splice site were examined for the

41 question both the fate of its pairing to the branch site and the details of its role in splicing cata

42 domain is required to target U2 snRNP to the branch site and the hU2AF35 RS domain is necessary for p

43 eosome to search for and utilize alternative branch sites and 3' splice sites.

44 ed modulators of epithelial growth to select branch sites and direct branch elongation, but the inter

45 d LR numbers due to the activation of LR pre-branch sites and LR primordia (LRP).

46 sed on the local concentration of spastin at branch sites and the other based on local detachment fro

47 vealed a reduction in the number of tertiary branching sites and increased spine density in Mecp2(WT_

48 icing factors located at the 5' splice site, branch site, and 3' splice site.

49 three obligate signals: a 5' splice site, a branch site, and a 3' splice site.

50 ll RNA containing the sequence of the intron branch site, and activate the branch adenosine to attack

51 en 18 and 40 nucleotides downstream from the branch site, and closer AGs are skipped in favour of AGs

52 e chemical groups on the adenine base at the branch site are differentially recognized during at leas

53 The few reported annotations of branch site are imprecise as reverse transcriptase skips

54 Branched sites are identified with the FRAGS reagent by

55 snRNP-directed loading of U2 snRNP onto the branch site as well as efficient trans-splicing in these

56 3' splice site and recruits U2 snRNP to the branch site at an early step in spliceosome assembly.

57 e 3' splice site and targets U2 snRNP to the branch site at an early step in spliceosome assembly.

58 atalytic step of pre-mRNA splicing, when the branch site attacks the 5' splice site (SS), and the sec

59 ever, other regions which are outside of the branch site base pairing region are not yet characterize

60 nt ATPase involved in monitoring the U2 BSRR-branch site base-pairing interaction.

61 d branch/branch-site models and unrestricted branch-site-based models (BS-REL, BUSTED and RELAX)), ou

62 ion of splicing, such as the position of the branch-site before and after the second step of splicing

63 e-like sequence in the universally conserved branch site-binding region of U2 is used in trans as a 5

64 atalytic step of pre-mRNA splicing, when the branch site (BS) attacks the 5' splice site, and the sec

65 The duplex formed between the branch site (BS) of a spliceosomal intron and its cognat

66 ancers and have been shown recently to alter branch site (BS) or 3' splice site selection in splicing

67 We now demonstrate that a strong branch site (BS), a long distance to the 3' splice site

68 l1 and Snail2 also promoted cell survival at branch sites, but this was not sufficient to induce bran

69 g the conserved A nucleotide of the intron 2 branch site (c.264-21A>G) was identified in the proband

70 Furthermore, we show that crosslinked branch sites can carry out both steps of splicing, sugge

71 RT-PCR across the branch sites confirmed lariat RNAs and circular RNAs in

72 Intron 6 of xTFIIS.oA contains splice and branch site consensus sequences conforming to those of t

73 by highly atypical 5' and 3' splice site and branch site consensus sequences that provide novel targe

74 composition and the presence of three glycan branch sites could be determined from the IRMPD fragment

75 il2, and E47 were transiently upregulated at branch sites; decreasing the expression of these transcr

76 This branch site does not bear homology to consensus mammalia

77 ic potentials of psi-modified and unmodified branch site duplexes.

78 n (BSRR), which base pairs with the pre-mRNA branch site during splicing.

79 P 155 contacts pre-mRNA on both sides of the branch site early in spliceosome assembly and is therefo

80 The intron downstream of the branch site emerges between the Prp8 reverse transcripta

81 wnstream CUGBP2-binding site and an upstream branch site for U2 snRNP binding.

82 n on endothelial cells at prelesional aortic branch sites from both apo E-deficient and apo E-deficie

83 Using a previously characterized branch site genetic suppression assay, we generated seco

84 In contrast, only a small fraction of branch sites have been identified even once.

85 ntribute to recognition of the spliceosome's branch site helix and activation of the nucleophile for

86 2 small nuclear (sn)RNA to form the pre-mRNA branch site helix.

87 duplex representing the eukaryotic pre-mRNA branch-site helix from Saccharomyces cerevisiae, in whic

88 ing formation of the unique structure of the branch-site helix.

89 ation indicates the importance of the lariat branch site in splicing.

90 The branch site is chosen with extraordinarily high fidelity

91 to discern the mechanism by which the proper branch site is chosen.

92 conserved SF3a/SF3b subunits upstream of the branch site is essential for anchoring U2 snRNP to pre-m

93 n vivo and in vitro results suggest that the branch site is recognized in the absence of an active 3'

94 se the receptor structure for activating the branch site is unknown.

95 a database of positive selection, based on a branch-site likelihood test.

96 nRNP and enhances binding of U2 snRNP to the branch site located upstream of the exon.

97 m single-stranded RNA in the optimal PPT and branch site locations and sequences further upstream.

98 It is the only known branch site marker.

99 A branch-site maximum likelihood model identified three si

100 The branch-site method (BSM) based on a likelihood ratio tes

101 g a variety of approaches (restricted branch/branch-site models and unrestricted branch-site-based mo

102 We also find that branch-site models will incorrectly identify unconverted

103 Furthermore SUMO branch-site mutants suppressed several of the phenotypes

104 The branch site mutation c.6599-20A>T causes type 1 VWD thro

105 ortantly, a missense mutation of ALK-1 and a branch-site mutation of endoglin were also detected.

106 he first time, the effect of a deep intronic/branch-site mutation on exon skipping in PTEN but also f

107 the mitochondria of yeast strains containing branch-site mutations.

108 three-helix-junction structure in which the branch-site nucleotide is located at the intersection of

109 The preference for the branch-site nucleotide is U > C congruent with A > G, al

110 a chemical basis for nature's choice of the branch-site nucleotide, which is almost always adenosine

111 identify the intronic region that binds the branch site of a group IIB intron.

112 The branch site of group II introns is typically a bulged ad

113 region of U12 snRNA, which base pairs to the branch site of minor class introns is well characterized

114 Pairing between U2 snRNA and the branch site of spliceosomal introns is essential for spl

115 and distal frequencies correlated well with branch sites of the pectinate musculature.

116 f mutational variability is tolerated at the branch-site of group II introns, with no apparent loss o

117 reasing delays in activation distal to major branching sites of the crista terminalis and pectinate b

118 f a U2 snRNP-containing complex on a minimal branch-site oligonucleotide.

119 splice sites, a polypyrimidine tract, and a branch site, other splicing-regulatory elements (SREs).

120 streamlined mechanism for recognition of the branch site, pyrimidine tract and 3' splice site at the

121 d both splice sites, we demonstrate that the branch-site receptor is a functional element required fo

122 served Psis (Psi35, Psi42, and Psi44) in the branch site recognition region (BSRR), which base pairs

123 Pseudouridine 35 (psi35) in the branch site recognition region of yeast U2 small nuclear

124 adopts a slightly different structure in the branch site recognition region.

125 s, each containing a point mutation near the branch site recognition sequence, for a synthetic growth

126 e to the overall recognition of the pre-mRNA branch site region by other components of the splicing r

127 inimal alpha-tubulin 3'SS, from the putative branch site region to the AG dinucleotide, is not suffic

128 U12 interaction with the 5' splice site and branch site regions of a U12-dependent intron, respectiv

129 urements suggest that the 5' splice site and branch site remain physically separated throughout splic

130 es of mutant and modified nucleotides at the branch-site reveal that adenine is recognized primarily

131 ynthesized by joining the 2'-hydroxyl of the branch-site ribonucleotide of a DNA or RNA strand to the

132 bozymes newly selected to use uridine as the branch-site RNA nucleotide in a structural context that

133 n important restriction for 7S11 is that the branch-site RNA nucleotide must be a purine (A or G), be

134 lice site selection by promoting alternative branch site selection.

135 fsK regulates hyphal branching by modulating branch-site selection and some aspect of the underlying

136 tructural determinants that appear to govern branch-site selection by group II introns.

137 s did not alter the high fidelity for proper branch-site selection.

138 g the need for initial nucleation or de novo branch-site selection.

139 nalogous to the pairing of US snRNA with the branch site sequence of the major class of introns.

140 equences are similar in S. pombe; however, a branch site sequence was not found in the P. carinii gen

141 tified approximately 80-kDa protein near the branch site sequence, suggesting a potential role for th

142 highly conserved adenosine in the consensus branch-site sequence, which is required for lariat forma

143 introns with noncanonical splice (AT-AC) and branch site sequences exists in metazoan protein coding

144 oes not bear homology to consensus mammalian branch site sequences.

145 pproach for defining high-resolution maps of branch-site sequences and intronic elements on a genomic

146 ution structure of the spliceosomal pre-mRNA branch site showed that a phylogenetically conserved pse

147 The classical splice site and putative branch site signals are completely conserved across the

148 Branch-site-specific analysis shows that the evolution o

149 involved in pre-mRNA splicing, including the branch site, splice sites, and polypyrimidine tract show

150 ins interact with pre-mRNA very close to the branch site, suggest that the SF3b complex plays a criti

151 several combinations of mutations moved the branch site systematically to new positions along the do

152 improved the computational efficiency of the branch-site test implementation, allowing larger data se

153 A reduced its affinity for Arp2/3 complex at branching sites that were stabilized by phalloidin.

154 An adenosine at the branch site, the nucleophile for the first transesterifi

155 osine at nt 385 (underlined) in the BPS as a branch site to dictate the selection of the nt 409 3' ss

156 A branch site-to-3' splice site spacing of less than 10 or

157 Finally, matching branch site usage with isoform selection across the exte

158 ces, the epithelium axially aligns fibers at branch sites via RhoA/ROCK-mediated contractions.

159 With label at the branch site, we detected three distinct proteins, design

160 with identical sequence that emerge from the branch site, we developed strategies to control which of

161 traditional splicing signals, including the branch site, we tested whether auxiliary elements in Alu

162 irst description of a mutation at the lariat branch site, which plays a pivotal role in the splicing

163 e and higher eukaryotes, this boundary and a branch site within the intron are conserved.