ライフサイエンスコーパス: reading frame

1 : p15(INK4b), p16(INK4a), and ARF (alternate reading frame).

2 e expansion using a non-canonical quadruplet reading frame.

3 insertion in exon 14 resulting in a shift of reading frame.

4 nd third in-frame AUG codons in the NS1 open reading frame.

5 overlapping words of length 3 in each of the reading frame.

6 induced translation is dependent on Arc open reading frame.

7 d in the case of protein coding DNA, an open reading frame.

8 UGs at positions 235 and 241 of the NS1 open reading frame.

9 rdless of its position within an mRNA's open reading frame.

10 NA splicing and largely encoded by the M1 +1 reading frame.

11 ntranslated regions (UTRs) flanking the open reading frame.

12 C, oppD, oppF, and oppA are in the same open reading frame.

13 of the oriPtRs contain the BCRF1/vIL10 open reading frame.

14 nal start site located within the bbb23 open reading frame.

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

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

17 rational when combined with an upstream open reading frame.

18 ranslationally repressed by an upstream open reading frame.

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

20 ranslation elongation through the viral open reading frame.

21 nucleotides (ASOs) that target upstream open reading frames.

22 of gene homologs to all 84 known HHV-7 open reading frames.

23 ces, including 2442 translated upstream open reading frames.

24 ded by a 3,200-bp genome with only four open reading frames.

25 omal entry sites (IRESs) preceding both open reading frames.

26 a clear three nucleotide periodicity in open reading frames.

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

28 GC-rich regions and the absence of long open reading frames.

29 NS1/NEP (Ms and split NS segment [NSs]) open reading frames.

30 are on the other hand likely to disrupt open reading frames.

31 he frequency distributions of three possible reading frames.

32 and an intergenic region separating two open reading frames.

33 ng has the potential to introduce novel open reading frames.

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

35 mmon second and third exons with alternative reading frames.

36 translocation excursions, broadly exploring reading frames.

37 with an exponentially growing number of open reading frames.

38 ses of strains bearing mutations within open reading frames.

39 products of previously uncharacterized open reading frames.

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

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

42 oding RNAs, and dynamic use of upstream open reading frames.

43 ce constraint), code appropriate peptides in reading frames 0 and 1 (coding requirements), and form a

44 to long interspersed element 1 (LINE-1) open reading frame 1 protein (ORF1p), which contains an N-ter

45 mRNA initiating at CUG codons within the +1 reading frame: 1) synonymous mutation of CUG codons in t

46 droxylase, ceruloplasmin, chromosome 19 open reading frame 12 and ATPase type 13A2.

47 s sarcoma-associated herpesvirus (KSHV) open reading frame 16 (orf16) encodes a viral Bcl-2 (vBcl-2)

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

49 expressing an authentic replicase from open reading frame 2 (ORF2) and a second duplicate nonstructu

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

51 and entirely overlapped by the env gene with reading frame -2.

52 re essential for viral growth in vitro (open reading frame 32 [ORF32], ORF59, ORF81, ORF83, ORF99, OR

53 e viral protein kinase (vPK) encoded by open reading frame 36 (ORF36) of Kaposi's sarcoma-associated

54 osphorylation did not require the viral open reading frame 47 (ORF47) and ORF66 kinases encoded by VZ

55 ed that although Nrf2 alone induces the open reading frame 50 (ORF50) promoter, its association with

56 Despite low-level expression of open reading frame 50 (ORF50), transcripts for the immune eva

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

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

59 viral RNAs (polyadenylated nuclear RNA, open reading frame 58 [ORF58], ORF59, T0.7, and ORF17) were a

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

61 nsable in skin, such as that encoded by open reading frame 66, are necessary in T cells.

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

63 e non-coding region of the Chromosome 9 open-reading frame 72 (C9orf72) gene is the most common genet

64 ted protein tau (MAPT), or chromosome 9 open reading frame 72 (C9orf72).

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

66 ltering pre-mRNA splicing to restore an open reading frame, allowing translation of an internally del

67 Reading frame altering genomic variants can impact gene

68 solution at the start of most annotated open reading frames although in some cases a downstream methi

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

70 mall deletion in the slo3 mutant changes the reading frame and creates a premature stop codon in the

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

72 enetic clustering within the partial E2 open reading frame and noncoding region 2.

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

74 s of TRAF3 protein including those impacting reading frame and splicing.

75 s, the arrival of the first tRNA defines the reading frame and strongly favors 0 frame initiation.

76 essed across an expansion located in an open reading frame and suggests RAN translation may also cont

77 maps over 90% of the footprints to the main reading frame and thus offers super-resolution profiles

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

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

80 ins, two ribosomal RNAs, three putative open reading frames and 33 transfer RNAs of 19 amino acids fo

81 tranded DNA genome coding for up to 250 open reading frames and a fully cytoplasmic replication.

82 of indel mutations, which create novel open reading frames and a large quantity of mutagenic peptide

83 the close spacing of approximately 200 open reading frames and extensive transcriptional read-throug

84 y varies substantially across all known open reading frames and is highest in latency-associated gene

85 een undertaken through the detection of open reading frames and other genomic motifs, supplemented wi

86 this article is the (mis)annotation of open reading frames and premature termination codons.

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

88 indel does not modify the frame of the open reading frame, and it is located eight nucleotides upstr

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

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

91 ding to 5' untranslated regions (UTRs), open reading frames, and 3' UTRs.

92 ternative codons occurred mostly within open reading frames, and fewer occurred in untranslated leade

93 codon preference index (CPI) to overlapping reading frames, and use RNAsampleCDS to generate control

94 AUG sequences and short open reading frames are commonly present in the 5'-leader seq

95 because deviations either into the -1 or +1 reading frames are often non-functional.

96 We identified the alternative reading frame (ARF) protein as a key protein associating

97 However, most open reading frames associated with these additional translat

98 likelihood for observing a full-length open reading frame at the targeted region.

99 explain why, despite having lost the E6 open reading frame between 20 and 60 million years ago, evide

100 ave evolved by tandem duplication of an open reading frame, but rather originated by fusion between a

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

102 tructural proteins and a +1 overlapping open reading frame called ORFx, respectively.

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

104 The N. gonorrhoeae NG0969 open reading frame contains a gene (nuc) that encodes a putat

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

106 t GC content and the number of upstream open reading frames could play a role in selective translatio

107 re stop codons in the target RNA and restore reading frame disruption.

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

109 34 amino acids and that we named dwarf open reading frame (DWORF).

110 uses, and as a likely consequence, most open reading frames encode multifunctional viral proteins tha

111 t lacking exons 4-7, which restores the open-reading frame, encodes a DNA repair proficient protein a

112 Each repeat contains an open reading frame encoding a double homeodomain (DUX) family

113 ruses were generated that contained the open reading frame encoding enhanced green fluorescent protei

114 this envelope transcript revealed long open reading frames encoding putative surface and transmembra

115 Targeted gene scans for open reading frames, encoding genes potentially involved in l

116 n non-coding gene because of lacking an open reading frame, especially in polyploidy human cell lines

117 proteins STEVOR (SubTElomeric Variable Open Reading frame) exert changes on GIE deformability.

118 Millions of small open reading frames exist in eukaryotes.

119 We compared AlignWise against other open reading frame finding software and demonstrate that the

120 of using a single CRISPR pair to correct the reading frame for the majority of DMD patients.

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

122 insertion of an EGFP cassette replacing the reading frames for two neighboring genes, MGF360-13L and

123 his study, we sequenced FFAR3 and GPR42 open reading frames from 56 individuals and found an unexpect

124 f seven viruses associated with T1D and open reading frames from other common viruses.

125 s, even for proteins translated in different reading frames from overlapping coding sequences; moreov

126 CCG repeats is supported in all 3 potential reading frames, generating polyproline, polyarginine, an

127 crRNAs targeting the reading frame have only slight impact on transcription.

128 TL) responses to epitopes in alternative HIV reading frames have been reported.

129 died the UL116 gene product, a putative open reading frame identified by in silico analysis and predi

130 This work demonstrates that maintaining the reading frame immediately after the initiation of transl

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

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

133 of the testis-expressed 11 gene (TEX11) open reading frame in blood and semen samples obtained from 2

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

135 n amino acid peptide encoded by a short open reading frame in exon 2 of the angiotensin type 1a recep

136 sion of intervening DNA and restored the Dmd reading frame in myofibers, cardiomyocytes, and muscle s

137 ssory protein encoded by an alternative open reading frame in PB1 segments of most influenza A virus.

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

139 trated that ectopic expression of TIMP2 open reading frame in the highly metastatic HCC cell line, MH

140 an mRNA, inefficient translation of an open reading frame in the leader region of the Salmonella mgt

141 re, we sequenced the full gyrA and gyrB open reading frames in 240 multidrug-resistant and extensivel

142 oti phage PhiM12 have a small number of open reading frames in common that appear to encode structura

143 ts have been evolutionary maintained as open reading frames in host genomes for over 40 million years

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

145 Several 2-LTR insertions have intact reading frames in some or all genes that are expressed a

146 pathway that acts on RNAs terminating their reading frames in specific contexts.

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

148 RAN translation from CCG repeats in multiple reading frames in transfected cells.

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

150 the advantage that the starting of the first reading frame is (usually) known.

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

152 start upstream of the repeat in the proline reading frame is present.

153 small NS protein encoded by the middle open reading frame, is required for the expression of the vir

154 lncRNAs tend to encode one or multiple open reading frames, it is not trivial to distinguish these l

155 e this variant does not alter the GFPT1 open reading frame, its pathogenic relevance has not yet been

156 nstrate that expression of RIOK3 (RIght Open reading frame kinase 3) was increased during hypoxic exp

157 and reveal the mechanism of repressor, open reading frame, kinase (ROK) transcription regulators.

158 efficient translation of corL, a short open reading frame located within the corA leader.

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

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

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

162 use of sequence fragment length profiling or reading frame occupancy enrichment to differentiate betw

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

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

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

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

167 sines located between genes or affecting the reading frame of genes.

168 a conserved CTCF binding site in the E2 open reading frame of high-risk HPV types.

169 mer set for amplification of the complete E6 reading frame of HPV16 and 3 other sets of primers (2 co

170 nscriptional coactivator by binding the open reading frame of its mRNA.

171 ry domain and regulation by an upstream open reading frame of Rbp35-dependent TOR signalling pathway.

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

173 protein, encoded in part from an alternative reading frame of the Ink4a (Cdkn2a) gene, inhibits the M

174 coding control region and the late gene open reading frame of the JCPyV genome.

175 mor suppressor expressed from an alternative reading frame of the p16 cyclin-dependent kinase inhibit

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

177 s systematically, we cloned full-length open reading frames of alternatively spliced transcripts for

178 ments combined in which the overlapping open reading frames of matrix 1 (M1)/M2 for the modified M se

179 des not only from precursors encoded in open-reading frames of mRNA transcripts but also cryptic pept

180 )/M2 for the modified M segment and the open reading frames of nonstructural protein 1 (NS1)/nuclear

181 tain 132,831 bp with 145 putative ORFs (open reading frames) of at least 50 amino acids.

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

183 orm of B. burgdorferi in which the ospA open reading frame, on lp54, was replaced with the ospC gene

184 om SARS-CoV only in containing an extra open reading frame (ORF) (named ORFX), between ORF6 and ORF7,

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

186 cancer cells, targeted E-cadherin mRNA open reading frame (ORF) and suppressed E-cadherin protein ex

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

188 tween MneRV2 and RRV26-95, although the open reading frame (ORF) encoding the KSHV ORFK15 homolog was

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

190 INE-1 5'UTR contains a primate-specific open reading frame (ORF) in the antisense orientation that we

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

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

193 s, family Potyviridae) contains a large open reading frame (ORF) of 3,494 codons translatable as a po

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

195 pesvirus (KSHV) is encoded by the first open reading frame (ORF) of the viral genome.

196 t cell types, and GP130, an overlapping open reading frame (ORF) of unknown function.

197 The identified ESS at the E7 open reading frame (ORF) prevents HPV18 233^416 splicing in t

198 -site mutations in the p38 coat protein open reading frame (ORF) that arose in response to a mutation

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

200 ionally, 594 GENCODE lncRNAs acquire an open reading frame (ORF) when their structure is extended wit

201 d at least one unique variant within an Open Reading Frame (ORF).

202 d with a peptide linker to generate one open reading frame (orf).

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

204 y assessing the ability of nearly every open reading frame (ORF; approximately 5,300 ORFs) to induce

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

206 ng 6 nucleotides in the overlapping P/C open reading frames (ORFs) (C(Delta170)) or a temperature-sen

207 Nine unique mutations were found in open reading frames (ORFs) 1a, 2, and 6 in the RVRp22 genome

208 al library that automatically maintains open reading frames (ORFs) and does not require linkers, adap

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

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

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

212 een identified with unusually divergent open reading frames (ORFs) in the conserved region of rpoA, t

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

214 68 substitutions that were localized in open reading frames (ORFs) likely associated with host cell e

215 lational repression, the protein coding open reading frames (ORFs) of certain individual mRNAs exhibi

216 xtremely weak after translation of long open reading frames (ORFs) on cellular mRNAs, reinitiation oc

217 the first detection of products from 27 open reading frames (ORFs) previously designated "predicted,"

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

219 However, MDV carries a number of unique open reading frames (ORFs) that have not yet been investigate

220 5 species, turned up 22 plasmid-derived open reading frames (ORFs) that showed syntenic and copy numb

221 e substitution rates for the individual open reading frames (ORFs) were highest in the regions encodi

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

223 as a 29,767-bp genome with 32 predicted open reading frames (ORFs), YSLV6 has a 24,837-bp genome with

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

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

226 otein (nsP) and structural protein (sP) open reading frames (ORFs).

227 rary (616 overlapping peptides spanning open reading frames [ORFs] 1-3) was used in interferon-gamma

228 A unique open reading frame (ORFX) was identified in the genomes of tw

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

230 Mutations in DMD disrupt the reading frame, prevent dystrophin translation, and cause

231 matrix of three rows corresponding to three reading frames, recording the frequency distribution of

232 synonymous mutation of CUG codons in the M2-reading frame reduced K(b)-SIINFEKL generation; 2) K(b)-

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

234 CMV/TransS), where the viral NP and GPC open reading frames replaced one another.

235 o separate, nonoverlapping, independent open reading frames represents a useful tool to independently

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

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

238 expression of 28% and 17% of H. ducreyi open reading frames, respectively, including genes involved i

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

240 pping coding requirements for all 6 possible reading frames simultaneously, even allowing IUPAC const

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

242 A wide variety of RNAs encode small open-reading-frame (smORF/sORF) peptides, but their functions

243 cover nonannotated protein-coding small open reading frames (smORFs).

244 The open reading frame ST0928 from a hyperthermophilic archaeron

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

246 ificant selective constraint in the inferred reading frames, suggesting that many are functional.

247 minally truncated protein with a distinct -1 reading-frame terminus.

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

249 NSs is encoded in a reading frame that overlaps that of the viral nucleocaps

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

251 A genome arrangement, encoding two main open reading frames that are driven by distinct internal ribo

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

253 ficient translation of mRNAs with short open reading frames that show greater than average translatio

254 de two (or more) peptides p,q in overlapping reading frames, that are identical (or have BLOSUM/PAM s

255 fused to Pretty Interesting Potyviridae open reading frame), the two PD-localized potyviral proteins

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

257 regulation of translation via upstream open reading frames, the over-reading of stop codons via ribo

258 r mutant analysis, we revised the rec27 open reading frame: the new start codon is in the previously

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

260 uence analysis of all 41 known ZIKV RNA open reading frames to date indicates that ZIKV has undergone

261 itiation codon selection by 5' upstream open reading frames, translation initiation factors, and prim

262 ng sequence characteristics of putative open reading frames, translation scores based on ribosomal co

263 The human cytomegalovirus opening reading frame UL144 is an ortholog of the TNF receptor s

264 Direct sequencing of an HCMV open reading frame UL56 region that included amino acids 230-

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

266 led by a single cis-regulatory upstream open reading frame (uORF) in the 5' untranslated regions (5'

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

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

269 cterize a complex landscape of upstream open reading frames (uORFs) across 5'-untranslated regions (U

270 he translation and function of upstream open reading frames (uORFs) across vertebrates.

271 or (AXIIR) mRNA, there are two upstream open reading frames (uORFs) acting in a fail-safe manner to i

272 Upstream open reading frames (uORFs) are known to regulate a few speci

273 Upstream open reading frames (uORFs) are ubiquitous repressive genetic

274 By examining conserved peptide upstream open reading frames (uORFs) of Arabidopsis and rice, we found

275 This includes upstream open reading frames (uORFs) present in mRNAs controlled by th

276 that bind to mRNA sequences in upstream open reading frames (uORFs) to specifically increase the amou

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

278 -mediated decay (NMD) targets, upstream open reading frames (uORFs), canonical ORFs shorter than appr

279 Upstream open reading frames (uORFs), located in transcript leaders (5

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

281 Two other open reading frames upregulated in the mesR mutant were shown

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

283 in which the nonstructural protein NSs open reading frame was deleted from the S segment and one in

284 This RSV F open reading frame was evaluated in rB/HPIV3 in three forms:

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

286 MB microdeletion including the entire KAT6A reading frame was identified with genome-wide array comp

287 ome was initially annotated, the TP0126 open reading frame was predicted to include a poly(G) tract a

288 is especially evident near the ends of open reading frames, where we observe accumulation of cleavag

289 hydrophobic protein from an overlapping open reading frame, which we designate E10.

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

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

292 The DSB repair event may preserve the HIV-1 reading frame, while destroying CRISPR gRNA homology.

293 In the former case, these include open reading frames with putative functions in metabolism, tr

294 rement for initiation site selection between reading frames, with initiation in the +1 frame, but not

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

296 is of the i-leader revealed a potential open reading frame within the leader sequence and the termina

297 express the PB1-F2 protein from an alternate reading frame within the PB1 gene segment.

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

299 ule (loxPint) can be placed anywhere in open reading frames without compromising protein expression.

300 uncharacterized mitochondrial protein (open reading frame YDR381C-A) as an important assembly factor