ライフサイエンスコーパス: reading frame

1 RF), which we call POLGARF (POLG Alternative Reading Frame).

2 fic activity of target sites within the open reading frame.

3 ative RNA editing that shifts the translated reading frame.

4 -binding site was mapped 5' of the sodA open reading frame.

5 , resulting in slippage of the translational reading frame.

6 ry to properly enter the capsid protein open reading frame.

7 tRNAs and their mRNA codons to maintain the reading frame.

8 o embryos with non-mosaic restoration of the reading frame.

9 hile precisely maintaining the translational reading frame.

10 ng of a polyprotein encoded in a single open reading frame.

11 rational when combined with an upstream open reading frame.

12 ithin the coding region of the opposite open reading frame.

13 introduction of a TC tag into the muNS open reading frame.

14 ranslationally repressed by an upstream open reading frame.

15 ft -1 nt and continue translating in the new reading frame.

16 at induces exon skipping to restore the open reading frame.

17 teristic gene models yet maintaining an open reading frame.

18 slated regions (NTRs) flanking a single open reading frame.

19 mRNA) as triplets of nucleotides in a single reading frame.

20 d have a wide range of genome sizes and open reading frames.

21 studies utilized N-terminally truncated open reading frames.

22 tion and the expression of codon-biased open reading frames.

23 s organized into domains in relation to open reading frames.

24 ndary structure motifs but no essential open reading frames.

25 ith proteins encoded by multiple overlapping reading frames.

26 ial translation and the use of multiple open reading frames.

27 ing systems to study translation in multiple reading frames.

28 NA translation dynamics in frameshifted open reading frames.

29 l-CoA carboxylase subunit D (accD)-like open reading frames.

30 s and thereby generate mutations in all open reading frames.

31 as multi k-mer frequencies and relaxed open reading frames.

32 from 22.6-33.0 Kbp, consisting of 27-39 open reading frames.

33 GR), and the biosynthetic trpB and trpA open-reading frames.

34 onfirmed as expressed genes with intact open reading frames.

35 ol during the translation of suboptimal open reading frames.

36 cularly those with highly elongated neo open reading frames.

37 in length, and encodes a predicted 106 open reading frames.

38 EBV miR-BamHI fragment H rightward open reading frame 1 (BHRF1)-2-5p clustered apart from other

39 In this study, we assessed LINE-1 open reading frame 1 protein expression in 12 p53 signature l

40 o2; coiled-coil domain containing short open reading frame 124 [CCDC124] in mammals) was found to be

41 ct two separate target sequences in the open reading frame 1ab (ORF1ab) region of the SARS-CoV-2 RNA

42 or detecting two regions of the genome (open reading frame 1ab [ORF1ab] and nucleocapsid protein [N])

43 s on an RNA-dependent RNA polymerase or open reading frame 1b gene assay.

44 showed that amphoterin-induced gene and open reading frame 2 (Amigo2) was overexpressed in LV12 cells

45 ls), and recently, late-annotated short open reading frame 2 (Lso2; coiled-coil domain containing sho

46 Open reading frame 2 (ORF2) Ag was detected in both plasma an

47 Here, an open reading frame 2 deletion mutant of the neuropathogenic E

48 ve primer set targeting the overlapping open reading frame 2/3 (ORF2/3) nucleotide sequence of HEV.

49 We identified 220 OR open reading frames, 20 of which are full length, intact OR g

50 V) alkaline exonuclease SOX, encoded by open reading frame 37 (ORF37), is a bifunctional early-lytic-

51 The absence of an equivalent open reading frame 3b (ORF3b) and genetic differences versus

52 odent CoV were also observed at 8.9-kDa open reading frame 4a at the 3' end of the spike gene.

53 s that contained mutations in the viral open reading frame 5 (ORF5) protein.

54 ous, tetradecanoyl phorbol acetate-, or open reading frame 50 (ORF50)/replication transactivator (RTA

55 We subsequently identified open reading frame 52 (ORF52), a multifunctional and abundant

56 In luciferase assays with VZV open reading frame 61 (ORF61) promoter reporter plasmid, IFN-

57 The large RNR subunit of KSHV, open reading frame 61 (ORF61), coprecipitated multiple APOBEC

58 ed promoter of the immediate early gene open reading frame 63 (ORF63).

59 ted expression of CXorf67 (chromosome X open reading frame 67), which frequently occurs in PFA ependy

60 Open reading frame 7 (ORF7) of VZV has been recognized as a n

61 cluding but not limited to chromosome 9 open reading frame 72 (C9orf72) repeat expansion carriers.

62 f a pathogenic mutation in chromosome 9 open reading frame 72 (C9orf72), progranulin (GRN) or microtu

63 acterized gene (C17orf99; chromosome 17 open reading frame 99), that is expressed in bone marrow and

64 10.3-kb genome that encodes a rare dual open reading frame, a feature uncharacteristic of classical f

65 The six variants lead to the same reading frame, adding a common proline rich C-terminal p

66 The interruption of the reading frame affects the transcriptional network in the

67 e of Pfn2 or overexpression of the Pfn2 open reading frame alone in otherwise wild-type cells largely

68 Reading frame altering genomic variants can impact gene

69 ranslated from nonannotated Alternative Open reading frame (AltORFs) were discovered using customized

70 nstrated the translation of alternative open-reading frames (altORFs) in addition to annotated protei

71 t to its expression, including a leader open reading frame and an RNA structure overlapping the initi

72 s; for example, a single indel may shift the reading frame and incorrectly truncate a protein sequenc

73 gandan subtype F, but with different K1 open reading frame and KSHV whole-genome sequences and a diff

74 mains of life, RelE has potential to improve reading frame and shed light on A-site occupancy in ribo

75 eye mutant strain had an intact transposase reading frame and terminal sequences consistent with fun

76 nly; attributes of the resulting transcript, reading frame and translated protein product are not rep

77 e features: TRmIND by the length of the open reading frame and TRmD both by a approximately 60 nucleo

78 Many maintain intact open reading frames and provirus expression together with HML

79 iboSeq data allowed precise determination of reading frames and revealed the translation of two ORFs

80 of HERV-K elements, still retain intact open reading frames and the capacity to produce certain viral

81 s a consensus 3' splice site that shifts the reading frame, and creates a premature stop codon downst

82 lts in a 10 nt insertion in mRNA, shifts the reading frame, and produces a premature stop codon downs

83 ynamic during cellular transitions, preserve reading frame, and reveal intricacy of cell states invis

84 no termini of these proteins to the NP1 open reading frame, and splice site mutations that prevented

85 iation, through disruption of the transcript reading frame, and thereby enhance muscle strength.

86 omplicated by high gene density, overlapping reading frames, and complex splicing patterns.

87 a specific set of mRNAs with short upstream reading frames, and regulate ribosome recycling.

88 Functional peptides encoded by short open reading frames are emerging as important mediators of fu

89 age genome as a network of paths: where open reading frames are favorable, and overlaps and gaps are

90 Also, SSP-coding small open reading frames are often expressed at low levels or only

91 Here we show that the Cdkn2a alternate reading frame (Arf) serves as a gatekeeper tumor suppres

92 ral CD8(+) T cell recognition of alternative reading frame (ARF)-derived peptides is uncertain.

93 o saturation of inserts adjacent to all open reading frames as well as conventional inactivation.

94 mutations near the N terminus of the G9 open reading frame but none in A16 or other genes.

95 ibit the translation of downstream main open reading frames, but some enhance expression.

96 angiopoietin 4 (ANGPT4), chromosome 11 open reading frame (C11orf30/EMSY), and exocyst complex compo

97 The overlapped reading frames can be accessed through alternative RNA e

98 itin gene is a unique, highly conserved open reading frame composed solely of tandem repeats, yet it

99 es carry a 7.5kb plasmid encoding eight open reading frames conventionally called plasmid glycoprotei

100 indings demonstrate the utility of ASO-based reading-frame correction as an approach to treat CLN3 Ba

101 e evaluated the correction of the dystrophin reading frame coupled to luciferase in mice lacking exon

102 sgmRNA encoding a ribosomally occupied open reading frame (dORF) located downstream of the nucleocap

103 an immunogenic peptide derived from an open reading frame downstream of the melanoma stem cell marke

104 esolution and have yielded no information on reading frame due to problems inherent to MNase digestio

105 e in bacteria that prevents +1 errors in the reading frame during protein translation and represents

106 brane proteins endoregulin (ELN), dwarf open reading frame (DWORF), myoregulin (MLN), and another-reg

107 nd SunTag sequences in different translation reading frames, each driven by distinct translation star

108 lights the functional activity of short open reading frame-encoded peptides and underscores their imp

109 D mutations that disrupt the dystrophin open reading frame extinguish luciferase expression.

110 o (SD) sequences positioned upstream of open reading frames facilitate translation initiation.

111 at is encoded in an mRNA by establishing the reading frame for protein synthesis.

112 ors carrying the full-length dystrophin open-reading frame for transduction of human muscle derived c

113 ludes those lncRNA gene loci with small open reading frames from being regarded as protein-coding.

114 Mutations that shift the reading frame generally cause gene inactivation and in e

115 n of the repeat within or outside of an open reading frame has been used to focus research on disease

116 us-CTV pathosystem, deletion of the p33 open reading frame in a CTV variant resulted in a significant

117 ed increasing lengths of the dystrophin open reading frame in a foamy virus vector and quantified pac

118 s mutagenic potential and can also alter the reading frame in an mRNA transcript because 1,N (6)-erA

119 ecise 3'-ends that for the first time reveal reading frame in bacteria.

120 g repressed the translation of the main open reading frame in cis, independent of the sequence of the

121 nction of the fragment's size and its 5' end reading frame in Ribo-Seq data generated from S. cerevis

122 The nonclassical open reading frame in the FCGR2C gene (FCGR2C.nc-ORF) was str

123 function of MC021, we replaced the F13L open reading frame in vaccinia virus with an epitope-tagged v

124 s by functional, non-canonical upstream open reading frames in its 5' untranslated region, which is b

125 nscript is produced with small upstream open reading frames in its 5' untranslated region.

126 ined as many as around 10% of the total open reading frames in some genomes, substantially increasing

127 ments, we detected at least 175 de novo open reading frames in the focal species O. sativa subspecies

128 did not find any intact capsid protein open reading frames in the integrated viral sequences, we exa

129 Finally, we reannotated nine open reading frames in the mitochondrial genome that code for

130 ts and sequenced the full gyrA and gyrB open reading frames in their respective sputum TB isolates.

131 owed for the identification of upstream open reading frames in transcripts, which we predict to be im

132 mutations predicted to restore BRCA1/2 open reading frames, including two patients with multiple ind

133 of a strong promoter while leaving its open reading frame intact.

134 individually express in human cells 204 open reading frames involved in the DNA damage response (DDR)

135 e hypothesis that mutation of the HBeAg open reading frame is an important factor driving CHB patient

136 The virion infectivity factor (Vif) open reading frame is conserved among most lentiviruses.

137 d downstream from the first ATG and the open reading frame is disrupted by a 1-bp insertion, expresse

138 ote skipping of specific exons such that the reading frame is restored and the resulting protein prod

139 analysis demonstrated that KSHV latent open reading frame K12 (ORFK12) gene (kaposin A)-mediated dec

140 d that the feature relationship between open reading frame length and guanine-cytosine (GC) content p

141 tein bL9 are known to exhibit a reduction in reading frame maintenance and to have a strong dependenc

142 ial in Mab and other mycobacteria, improving reading frame maintenance on the ribosome to prevent fra

143 his quality control step produces defects in reading frame maintenance.

144 tion of uridines to generate functional open reading frames, many of which encode components of the m

145 pression of identified and unidentified open reading frames needed to deal with and overcome the many

146 Novel open reading frames (nORFs) with coding potential may arise f

147 rsification, such as emergence of novel open reading frames (nORFs).

148 An isogenic knockout mutant of the open reading frame NTHI1441 showed a 76.6% +/- 5.5% reduction

149 AMLs, resulting in a C-terminal alternative reading frame of 11 aa.

150 gRNA-mediated CRISPR/Cas9 to target the open reading frame of a gene in the genome and analyze the in

151 med by GFP accumulation from the second open reading frame of a polycistronic messenger RNA, which wo

152 sequences - most of them located in the open reading frame of CD95L.

153 We discuss that mutations in the open reading frame of CEBPA lead to an altered C/EBPalpha fun

154 embrane protease, serine 2) gene to the open reading frame of ERG, encoding an ETS family transcripti

155 a library of fragments derived from an open reading frame of interest and enriching for the interact

156 A mutation at base 1,455 in the open reading frame of Ma1 leads to a premature stop codon tha

157 the initiator aminoacyl-tRNA determines the reading frame of messenger RNA (mRNA) translation by the

158 d biosynthesis), as well as in ycf2 (a giant reading frame of still unknown function), are responsibl

159 uscular dystrophy caused by mutations in the reading frame of the dystrophin gene disrupting its prot

160 and all previous sequences that disrupts the reading frame of the M005L/R gene.

161 he 5' untranslated region or within the open reading frame of the toxin hamper its translation by sta

162 The I2L open reading frame of vaccinia virus (VACV) encodes a conserv

163 d protein-coding genes, including small open reading frames of less than 100 codons, and the translat

164 ing impairments that lead to a shift in open reading frames of MLPH and MITF.

165 ontaining transporter genes and several open-reading frames of unknown function.

166 lts in bicistronic transcripts with two open reading frames, of which only the first, MOCS1A, is tran

167 switch from the old defective message to the reading frame on tmRNA.

168 g the repressive effect of the upstream open reading frames on gene expression and the mutational eff

169 lture, contained a 2,158-bp deletion in open reading frame (ORF) 12.

170 rized type I IFN antagonism of MERS-CoV open reading frame (ORF) 8b accessory protein.

171 ibiotic resistance encoded in the first open reading frame (ORF) and accumulation of the reporter gen

172 previously annotated Copenhagen strain open reading frame (ORF) as a 17.4-kDa protein.

173 essment across pan-cancer fusion genes, open reading frame (ORF) assignment, and retention search of

174 in translation of the chloroplast psbJ open reading frame (ORF) but has no effect on psbA expression

175 and harbour an additional uninterrupted open reading frame (ORF) covering almost the entire length of

176 enes relied on assumptions, such as one open reading frame (ORF) encodes one protein and minimal leng

177 genomes of 2.2 to 4.4 kb with a single open reading frame (ORF) encoding an RNA-dependent RNA polyme

178 Remarkably, the approximately 1,100 bp open reading frame (ORF) encoding the envelope proteins is fu

179 p crinkle virus (TCV) coat protein (CP) open reading frame (ORF) has been found to promote internal e

180 s during virus replication, although an open reading frame (ORF) is retained among an unknown percent

181 The integrity of the putative BWRF1 open reading frame (ORF) is retained in over 80% of strains,

182 The open reading frame (ORF) lengths of TmELO1 and TmELO2 were 10

183 While at least one reliable open reading frame (ORF) model has been assigned for every co

184 To address this, we replaced the NSP3 open reading frame (ORF) of the segment 7 (pT7/NSP3) transcri

185 e introduction of a frameshift into the open reading frame (ORF) of the target gene which truncates t

186 se is quite broad: the median number of open reading frame (ORF) products recognized was nine per per

187 NA1 dsRNA is 1,683 bp in length with an open reading frame (ORF) that encodes 539 amino acids (molecu

188 that the last 36 nucleotides of the NSs open reading frame (ORF) were needed to ensure the efficient

189 frameshift site or by truncating the X open reading frame (ORF), had little effect on the infectious

190 tional domains/sites or shifting of the open reading frame (ORF), leading to a variety of human disea

191 conserved 260-triplet-long overlapping open reading frame (ORF), which we call POLGARF (POLG Alterna

192 two parts formed a single read-through open reading frame (ORF).

193 mitochondrial clades based on the mtDNA open reading frame (ORF).

194 size of 4248 bp and only four putative open reading frames (ORF), vB_RpoMi-Mini becomes the smallest

195 virus containing three partially overlapping reading frames, ORF1 to ORF3.

196 ism and to the presence of the atypical open reading frames (ORFans) F-orf and M-orf, respectively in

197 ntify the expression of canonical viral open reading frames (ORFs) and to identify 23 unannotated vir

198 downstream of previously annotated EBV open reading frames (ORFs) and viral promoters.

199 the determinants of ribosome flux along open reading frames (ORFs) are not fully understood.

200 Ribo-TISH can also predict novel open reading frames (ORFs) from regular ribosome profiling (r

201 nserved (core) and variable (accessory) open reading frames (ORFs) grouped at fixed regions in their

202 Bam35, nearly half of the 32 annotated open reading frames (ORFs) have no homologs in databases (ORF

203 zed into operons consisting of discrete open reading frames (ORFs) in a single polycistronic mRNA.

204 have revealed abundant expressed short open reading frames (ORFs) in bacteria.

205 We subjected various open reading frames (ORFs) in the genome of respiratory syncy

206 The open reading frames (ORFs) involved have functions related to

207 The predicted 80 open reading frames (ORFs) of herpes simplex virus 1 (HSV-1)

208 letion or interruption of any of the 12 open reading frames (ORFs) of the virus.

209 a novel strategy to generate candidate Open Reading Frames (ORFs) resulting from Cytidine to Uridine

210 ity leading to the formation of altered open reading frames (ORFs) that appear to be under relaxed se

211 ools, we first identified 315 potential open reading frames (ORFs) within the genome, including the 1

212 s of HIV-RNA transcripts with competent open reading frames (ORFs), and can be found in the periphera

213 GCs usually carry promoter-less open reading frames (ORFs), encoding proteins with various fu

214 r re-evaluating the coding potential of open reading frames (ORFs), including many short ORFs that we

215 We identify hundreds of new open reading frames (ORFs), including upstream ORFs (uORFs) a

216 equence containing 128 unique predicted open reading frames (ORFs), many of which were most closely r

217 ncoding distinct repeat epitopes in two open reading frames (ORFs), one translated from the 5' cap, a

218 In addition to canonical open reading frames (ORFs), thousands of translated small ORF

219 , identification of actively translated open reading frames (ORFs), to the quantification of translat

220 tify translation at the level of single open reading frames (ORFs), using information from Ribo-seq d

221 ble-stranded DNA (dsDNA) genome with 31 open reading frames (ORFs), whose predicted gene products sho

222 d that many mRNAs can also encode small open reading frames (ORFs).

223 single-stranded RNAs lacking annotated open reading frames (ORFs).

224 oduce 21 transcripts with nine distinct open reading frames (ORFs).

225 Each genome encodes 21 open reading frames (ORFs).

226 d analysis of the remaining alleles for open reading frames (ORFs).

227 de coding sequence to the Pgd1 and Pgd2 open reading frames (ORFs).

228 which bidirectionally encode two major open reading frames (ORFs): Rep and capsid protein (CP) chara

229 alysis, FX548 contained no mutations in open reading frames other than hgbA We conclude that by an un

230 Additionally, open reading frame Ov8, unique to OvHV-2, was found to encode

231 e analysis revealed that an unannotated open reading frame (Percc1) flanks the regulatory sequence, a

232 Two open reading frames predicted from the genomic islands coded

233 ase inhibitor 2A (Cdkn2a), whose alternative reading frame product p19 activates Trp53, we also ident

234 The median number of HSV-1 open reading frames recognized per person was 16.

235 premature stop codon in the 33277 fimB open reading frame relative to the 381 fimB allele.

236 express the NSs protein or have the NSs open reading frame replaced with a reporter gene.

237 hancing factor (PTEF) relieves upstream open reading frame repression and thereby facilitates VAR2CSA

238 f PTEF, and the alleviation of upstream open reading frame repression requires the proteolytic proces

239 ARv56es maintains the reading frame resulting in the inclusion of the C-termin

240 PrEP), we performed KSHV typing with K1 open reading frame Sanger and KSHV whole-genome sequencing.

241 ting from DRC (one partial and one full open reading frame sequence).

242 owth, we generated three mutant alleles with reading frame shift mutations in the zebrafish smyhc1 ge

243 e has pointed to the existence of small open reading frame (smORF)-encoded microproteins in mammals,

244 Small open reading frames (smORFs) and their encoded microproteins

245 Small open reading frames (smORFs) encoding 'micropeptides' exhibit

246 ncRNAs have been found to contain short open reading frames (sORFs) which have been overlooked becaus

247 elements include mRNA folding, upstream open reading frames, specific nucleotides flanking the initia

248 letions at coding sequence of the ORF8 (open reading frame), spike, and ORF7a proteins, specifically

249 we named "start-snatching." Depending on the reading frame, start-snatching allows the translation of

250 emming from variants that produce an altered reading frame, such as stop-lost variants and small inse

251 y-one disruption of each of LINC00261's open reading frames suggests that the RNA, rather than the pr

252 Both are encoded by a single 870-bp open reading frame that exhibits genetic polymorphisms in hum

253 This isoform embraces an alternative reading frame that imparts a 50% change in CTD protein s

254 region was found to contain an upstream open reading frame that is required for Pi-responsive express

255 Tug1 contains an evolutionary conserved open reading frame that when overexpressed produces a stable

256 script variant lacking a small upstream open reading frame that would otherwise inhibit translation o

257 The LLT RNA contains multiple upstream open reading frames that can inhibit translation.

258 Short open reading frames that could produces micropeptides were tr

259 Pseudogenes represent open reading frames that have been damaged by mutations, rend

260 RTC4 transcript contains small upstream open reading frames that prevent translation of the downstrea

261 nserted sense or antisense to the luciferase reading frame, the XDP variants repressed or enhanced tr

262 ular genome of 107,063 bp containing 97 open reading frames, the majority of which share sequence sim

263 icistronic viruses but contain a single open reading frame, thus likely representing a recent example

264 tem by linking the hopper(Bd-we) transposase reading frame to a D. melanogaster hsp70 promoter for a

265 PR/Cas9 system despite their lacking an open reading frame to evaluate functional loss.

266 CGG RAN acts as an inhibitory upstream open reading frame to suppress basal FMRP production.

267 smid DNA encoding the 3.9 kb human NPC1 open reading frame, under the influence of a 1.5 kb platelet

268 cleotide sequence preceding an upstream open reading frame (uORF) and downstream GFP drives a broad r

269 An upstream open reading frame (uORF) confers the translational control o

270 nscriptionally regulated by an upstream open reading frame (uORF) located in its 5' untranslated regi

271 s work, we demonstrate that an upstream open reading frame (uORF) present in the 5' untranslated regi

272 ovirus genomes also harbour an upstream open reading frame (uORF) that is subject to strong purifying

273 oteins or translation of upstream small open reading frames (uORF).

274 Upstream open reading frames (uORFs) are known to control the translat

275 Upstream open reading frames (uORFs) are potent regulatory elements lo

276 Upstream open reading frames (uORFs) are tissue-specific cis-regulator

277 ved thousands of AUG-initiated upstream open reading frames (uORFs) that are a major contributor to t

278 lation events, including 1,329 upstream open reading frames (uORFs) within the 5' untranslated region

279 of Kozak sequence composition, upstream open reading frames (uORFs), and secondary structure.

280 leader sequence with multiple upstream Open Reading Frames (uORFs), thereby activating stress-respon

281 initiation on mRNAs harbouring upstream open reading frames (uORFs).

282 t also two pathogen-responsive upstream open reading frames (uORFsTBF1) of the TBF1 gene.

283 d due to the presence of multiple small open reading frames upstream of the coding region.

284 including cis functions, possible additional reading frame usage, a plausible mechanism by which the

285 of an antigen or antigens, alternative open reading frame usage, and translation of RNA splicing var

286 Identical genomic and open reading frame was found to be present in close relatives

287 CD4+ T-cell response to specific HSV-1 open reading frames was greater between MZ twins than between

288 Using PhyloCSF to survey alternative reading frames, we found a conserved coding signature in

289 ), inhibits translation of a downstream open reading frame when bound to amino-tSS.

290 tation pipelines generally ignore small open reading frames, which are those most likely to encode SS

291 tiple microproteins encoded in upstream open reading frames, which form stable complexes with the mai

292 dN/dS ratio) located a region of overlapping reading frames, which is subject to positive selection i

293 ogenic functions of the plasmid-encoded open reading frames, which may motivate further investigation

294 As phage Seahorse genome encodes 48 open reading frames with many hypothetical proteins, this gen

295 Here, we describe an alternative open reading frame within human insulin mRNA encoding a highl

296 generate multiple proteins from overlapping reading frames within its RNA genome.

297 shown that a fraction of putative small open reading frames within lncRNAs are translated.

298 Among the open reading frames within the viral genome, ORF3, ORF5, and

299 in encoded in part by a +1 frameshifted open reading frame (X-ORF) in segment 3.

300 sette exons, which disrupt their host genes' reading frames yet are frequently ultraconserved.