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Sample search results for: a-rich rna sequences

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1 Published Ahead of Print 19 September 2011. 10.1128/MCB.05885-11.
 

Summary:  to the 3 domain C-loop motif, the BC RNA central A-rich domain does not seem to be relevant... by the central A-rich domain of BC1 RNA, while the 3 C-loop motif, in contrast, does not contribute (Fig. 5B... ). As with BC1 RNA, conversion of the central region from ...

  

Source: Bedwell, David M. - Department of Microbiology, University of Alabama at Birmingham

 

Collection: Biology and Medicine

 
2 Cell, Vol. 123, 249263, October 21, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.cell.2005.08.033 Regulating Gene Expression
 

Summary:  cloned and sequenced. Complete sequence alignment revealed that CTN-RNA is an w8 kb transcript... mRNA (Figure 2B). However, sequence analysis revealed that mCAT2 mRNA utilizes the first poly... strengthening the link between RNA editing and ...

  

Source: Zhang, Michael Q.- Watson School of Biological Sciences, Cold Spring Harbor Laboratory

 

Collection: Biotechnology

 
3 The EMBO Journal vol.15 no.23 pp.6758-6765, 1996 Guide RNA-directed uridine insertion RNA editing
 

Summary:  in the absence of the added cognate gRNA; the extent of this activity was affected by sequences upstream... ' 'anchor' sequence complementary to the mRNA just downstream of the region to be edited. The formation... to form a duplex with the G+A-rich pre-edited region and stabilize the ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine

 
4 Heterodimer SRP9/14 is an integral part of the neural BC200 RNP in primate brain
 

Summary:  with a high sequence similarity to the Alu domain of the SRP RNA; a central A-rich domain and a 3 terminal... ]. The progenitor of this sequence family was identified as the 7SL RNA, the RNA component of the signal recognition... segment with a ...

  

Source: Walter, Peter - Department of Biochemistry and Biophysics, University of California at San Francisco

 

Collection: Biology and Medicine

 
5 Initiation of Minus-Strand DNA Synthesis by Human Immunodeficiency Virus Type 1 Reverse Transcriptase
 

Summary:  structure upstream of the PBS (39, 40). Deletion of this A-rich loop from the RNA genomic template results... to the primer binding site (PBS) of the HIV RNA genome. The relative locations of the U5, U3, and R sequences... primer whose sequence is identical to the 3 end of the human ...

  

Source: Vaccaro, Joe - Department of Biochemistry, Tulane University

 

Collection: Biology and Medicine

 
6 BIOINFORMATICS ORIGINAL PAPER Vol. 24 no. 24 2008, pages 28492856
 

Summary:  /btn544 Sequence analysis IntaRNA: efficient prediction of bacterial sRNA targets incorporating target... of the interacting RNA sequences (n>m), and a heuristic simplification of the complete approach, which has a time... by concatenating the two RNA ...

  

Source: Will, Sebastian - Lehrstuhl für Bioinformatik, Institut für Informatik, Albert-Ludwigs-Universität Freiburg

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
7 On the facultative requirement of the bacterial RNA chaperone, Hfq
 

Summary:  .M. et al. (2007) A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements... . Trans-acting RNAs: RNAs that bind target mRNA sequences via imperfect pairings to regulate... duplexes are formed between relatively short RNA sequences inter- ...

  

Source: Rennes, Université de - Faculté de Pharmacie

 

Collection: Biology and Medicine

 
8 Cell, Vol. 62, 391-397, July 27, 1990, Copyright 0 1990 by Cell Press Guide RNAs in Kinetoplastid Mitochondria Have
 

Summary:  is to specify the precise sequence information by forming an RNA-RNAduplex at correctly edited sites... sequence 3' of the preedited region and the 5' portion of the correspond- ing gRNA. We designate... since the hybrid-selected 3*P-labeled gRNA bands were gel purified prior to ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine

 
9 Efficient Initiation of HIV-1 Reverse Transcription in Vitro REQUIREMENT FOR RNA SEQUENCES DOWNSTREAM OF THE PRIMER BINDING SITE ABROGATED BY
 

Summary:  and variable loop of tRNA3 Lys and a sequence upstream of the A-rich loop in the template. Taken together... of the anticodon stem and the variable loop of the tRNA (nt 40­46) and U5 sequences upstream of the A-rich loop... and an A-rich loop in ...

  

Source: Levin, Judith G. - Laboratory of Molecular Genetics, National Institutes of Health

 

Collection: Biology and Medicine

 
10 Activation of RegB endoribonuclease by S1 ribosomal protein requires an 11 nt conserved sequence
 

Summary:  RNAs showed that the cut RNA sequences contain an A-rich sequence of 7 nt, immedi- ately 30 to the GGAG... - by the A-rich sequence of motB. This produced denV[motB] chimeric RNA (Figure 1). In the presence of S1... ). Conversely, the stimulation ...

  

Source: Ecole Polytechnique, Centre de mathématiques

 

Collection: Mathematics

 
11 Nucleic Acids Research, 2008, 112 doi:10.1093/nar/gkn1015
 

Summary:  Nucleic Acids Research, 2008, 1­12 doi:10.1093/nar/gkn1015 The A-rich RNA sequences of HIV-1 pol... . Bioinformatic analysis predicted that A-rich sequences are generally associated with minimal local RNA... reduced the flexibility of RNA ...

  

Source: Palmenberg, Ann C.- Institute for Molecular Virology & Department of Biochemistry, University of Wisconsin at Madison

 

Collection: Biology and Medicine

 
12 JOURNAL OF BACTERIOLOGY, Apr. 1995, p. 19191928 Vol. 177, No. 8 0021-9193/95/$04.00 0
 

Summary:  analysis (25). In this approach, ``ho- mologous'' (i.e., of common ancestry) RNA sequences from different... - rial RNase P RNA was a challenge because of the substantial sequence and length variation... in the molecule from diverse organisms. The first RNase P RNA ...

  

Source: Brown, James W. - Department of Microbiology, North Carolina State University

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
13 Supplementary Material Accessibility and conservation in bacterial small RNA-mRNA
 

Summary:  , matching brackets represent base pairs between the two sequences and dots represent unpaired positions. sRNA... sequences and dots represent unpaired positions. sRNA Target sRNA site Target site Interaction Validation... . Lucchini, J. C. D. Hinton, and J. Vogel. Coding ...

  

Source: Will, Sebastian - Lehrstuhl für Bioinformatik, Institut für Informatik, Albert-Ludwigs-Universität Freiburg

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
14 How RNA Folds Ignacio Tinoco Jr1
 

Summary:  sequence. However, to solve the RNA folding problem one needs thermodynamic data on tertiary structure... to interpret an RNA sequence in terms of its folded, three-dimen- sional functional form. Functional... a single sequence is available for the RNA, sec- ondary ...

  

Source: Bustamante, Carlos - Department of Chemistry, University of California at Berkeley

 

Collection: Chemistry

 
15 Most of the functional groups in a double helix that allow a protein to recognize a specific base pair are in the
 

Summary:  : 257. Athanasiadis A., Rich A., and Maas S. 2004. Widespread A-to-I RNA editing of Alu-containing m... than that of DNA. It is diffi- cult for a protein to enter the major groove of dsRNA to make sequence... -specific contacts, and in fact, all charac- terized ...

  

Source: Bass, Brenda L. - Departments of Biochemistry & Human Genetics, University of Utah

 

Collection: Biology and Medicine

 
16 Molecular Cell 21, 239248, January 20, 2006 2006 Elsevier Inc. DOI 10.1016/j.molcel.2005.11.028 Nrd1 Interacts with the Nuclear Exosome
 

Summary:  -rich sequence (GAL7-3) or with nucleotide substitutions in the A-rich sequence (GAL7-12) or the polyadenylation... sequence elements (UA-rich, A-rich, poly(A) site) and Nrd1 sequence containing the strong stop are boxed... interaction with the ...

  

Source: 

 

Collection: Biology and Medicine

 
17 ncRNA , , [1]. small RNA
 

Summary:  . . 1. miRNA 3' 5mer, 5' 5mer 35mer . miRNA 2 miRNA 2. (sequence) (structure) 3... 1. ncRNA , , [1]. small RNA . small RNA siRNA , ...

  

Source: Zhang, Byoung-Tak - School of Computer Science and Engineering, Seoul National University

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
18 Molecular Cell Regulation by Small RNAs in Bacteria
 

Summary:  regulatory networks. In addition, the application of RNA deep sequencing has led to reports of hundreds... sequences, here denoted anti- sense RNAs (asRNAs), also have been found to impact transla- tion and/or mRNA... at even more variable locations, including deep within the coding ...

  

Source: Storz, Gisela - Cell Biology and Metabolism Branch, National Institute of Child Health and Human Development

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
19 The EMBO Journal Vol.17 No.11 pp.31883196, 1998 Presence and location of modified nucleotides in
 

Summary:  mimicking the conserved sequence of T loops in canonical tRNAs. Although tmRNA acceptor branches (acceptor... and sequence location of post- transcriptionally modified nucleotides in RNA. It is based on the accurate... occurrences of the sequence (or isomers) within the ...

  

Source: Rennes, Université de - Faculté de Pharmacie

 

Collection: Biology and Medicine

 
20 TiiE JOURNAL OF BIOLOGICAL CHEMISTRY O 1999 by Tlio American Society for Biochemiatiy and Molecular Biology, Inc.
 

Summary:  with the G+A rich pre-edited sequence and forms a 3' anchor duplex that both stabilizes the initial... . Representative sequences of several nicked double- stranded RNA substrates for the bridged ligation reaction. Syn... .SA. The Mitochondrial RNA Ligase from ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine


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21 Recognition of the unique structure of DNA:RNA hybrids Nicholas N. Shaw, Dev P. Arya*
 

Summary:  171 (1953) 737e738. [2] A. Rich, An analysis of the relation between DNA and RNA, Ann. N.Y. Acad. Sci... . 81 (1959) 709e722. [3] A. Rich, Discovery of the hybrid helix and the first DNAeRNA hybrid- ization... hybrid [19]. Furthermore, the lability of some hybrid ...

  

Source: Stuart, Steven J. - Department of Chemistry, Clemson University

 

Collection: Chemistry

 
22 RNA-binding proteins, which are involved in the synthesis, processing, transport, translation, and degradation of RNA,
 

Summary:  a highly specific interaction with the mRNA's A-rich 5UTR. Figure 1 S S H HS S H H S SS S S S H H RB55 Dark... to this minimum [23,25,26]. Worse yet, most RNA-binding proteins do not show sequence-specific binding in vitro... that it functions as a protein interaction domain [33]. ...

  

Source: Fedoroff, Nina V.- Huck Institutes of the Life Sciences & Department of Biology, Pennsylvania State University

 

Collection: Biology and Medicine

 
23 Abbreviations A adenine
 

Summary:  SSU rRNA or ss rRNA­ small subunit rRNA T ­ thymidine TATA-box ­ thymidine and adenine rich sequence... -turn-helix INR ­ initiator responsive element kDa ­ kilo Dalton LUCA ­ the last universal common ancestor mRNA... ­ messenger RNA PIC ­ pre-initiation ...

  

Source: Groningen, Rijksuniversiteit - Centre for Ecological and Evolutionary Studies, Department of Marine Benthic Ecology and Evolution,

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
24 A Multifunctional Turnip Crinkle Virus Replication Enhancer Revealed by in vivo Functional SELEX
 

Summary:  RNA contains a (þ)-strand hairpin (H4), also flanked by A-rich sequences, which is similar to the (þ... on average 33% more stable in their (þ)-strand orientation, and most formed hairpins with a A-rich sequence... sequences fold into stem-loops that are more ...

  

Source: Simon, Anne - Department of Cell Biology and Molecular Genetics, University of Maryland at College Park

 

Collection: Biology and Medicine

 
25 RNA editing by A-to-I modification in pre-mRNAs constitutes a major mechanism for the generation of RNA and protein diversity in
 

Summary:  Bioinformatics approach for identification of recoding events due to RNA editing References Athanasiadis, A... ., Rich, A. and Maas, S. (2004). Widespread A-to-I RNA editing of Alu-containing mRNAs in the human... editing sites within the pre-mRNA sequences of ...

  

Source: Lopresti, Daniel P. - Department of Computer Science and Engineering, Lehigh University

 

Collection: Computer Technologies and Information Sciences

 
26 Meike Kuschel Walter Ausserer
 

Summary:  in poly (A)+ sequences by three rounds of oligo (dT) selection using the Oligotex mRNA Mini kit from... Meike Kuschel Walter Ausserer Characterization of RNA quality using the Agilent 2100 Bioanalyzer... Introduction RNA quality is critically important for many applications. These include Northern ...

  

Source: Steve Kemp - School of Biological Sciences, University of Liverpool

 

Collection: Environmental Sciences and Ecology

 
27 New insight into RNase P RNA structure from comparative analysis of the archaeal RNA
 

Summary:  and bacterial RNase P RNA have largely disappeared, and even variation in the sequence and structure of the RNAs... is the endonuclease responsible for the removal of leader sequences from tRNA precursors (for review, see Pace & Brown... are ribonucleopro- teins, and the RNA subunits ...

  

Source: Brown, James W. - Department of Microbiology, North Carolina State University

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
28 HIV-1 primer annealing The annealing mechanism of HIV-1 reverse transcription primer onto the
 

Summary:  -rich anticodon of the tRNA #12;HIV-1 primer annealing 4 and an A-rich loop located immediately upstream from... in figure 1. The HIV-1 viral RNA fragment (65 nucleotides) that contains both the PBS and the HIV-1 A-rich... , a stoichiometric amount of the A-rich loop ...

  

Source: Ecole Polytechnique, Centre de mathématiques

 

Collection: Mathematics

 
29 Translational Control by RNA-RNA Interaction Improved Computation of RNA-RNA Binding
 

Summary:  RNAs and target sequence [30, 31]. In [28], only the target molecule was assumed to be structured, while the ncRNA... -dalgarno sequence as well as the start codon. We remark that this is an example of the modifier RNA mechanism... multiple ABC transporter mRNAs by targeting C/A-rich ...

  

Source: Stadler, Peter F. - Institut für Informatik, Universität Leipzig

 

Collection: Biology and Medicine

 
30 Chapter 3 Outline Plasma Membrane
 

Summary:  stages - Transcription occurs when DNA sequence in a gene is turned into a mRNA sequence - Translation... occurs when mRNA sequence is used to make a protein 3-27 Gene Expression Each nucleus contains 1 or more... to be transcribed Binds to promoter, a DNA sequence, ...

  

Source: Morrell, Thomas E. - Department of Biology, Ball State University

 

Collection: Environmental Sciences and Ecology

 
31 The 3rd Annual Conference of the Korean Society for Bioinformatics (KSBI2004) Identification of Caenorhabditis elegans microRNA target
 

Summary:  of Caenorhabditis elegans microRNA target using a neural network microRNA target Wha-Jin Lee1,2,3 , Byoung... -742, Korea * To whom correspondence should be addressed. E-mail: btzhang@bi.snu.ac.kr Abstract microRNA (miRNA... ) 21-25 nucleotide (nt) single-stranded RNA ...

  

Source: Zhang, Byoung-Tak - School of Computer Science and Engineering, Seoul National University

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
32 Annu. Rev. Biophys. Biomol. Struct. 1999. 28:5773 Copyright c 1999 by Annual Reviews. All rights reserved
 

Summary:  that are distant in the primary sequence. The set of helices that are formed by an RNA and their interconnections... of P4-P5-P6 clamp the two stacks together: An adenosine-rich corkscrew (the A-rich bulge) plugs... the tetraloop receptor. The backbone of the A-rich bulge makes a corkscrew turn held by two ...

  

Source: Doudna, Jennifer A. - Department of Molecular and Cell Biology, University of California at Berkeley

 

Collection: Biology and Medicine

 
33 Methods 34 (2004) 408414 www.elsevier.com/locate/ymeth
 

Summary:  approach involves engineering the U1A binding site sequence into non-essential regions of the RNA... reactions. In this case, the RNA coding sequence is subcloned into a high-copy number plasmid such as pUC19... a monophosphate at the 5 terminus. A DNA splint com- plementary to the entire donor ...

  

Source: Doudna, Jennifer A. - Department of Molecular and Cell Biology, University of California at Berkeley

 

Collection: Biology and Medicine

 
34 67506761 Nucleic Acids Research, 2007, Vol. 35, No. 20 Published online 4 October 2007 doi:10.1093/nar/gkm777
 

Summary:  EII-digested pATP2 or gRNA. Sequences of oligonucleotides used above are as follows: PH: 50 -GCGGCCGCGGTTACC PI... -amplified 0.5 kb coding sequence, and the probe for ATP2 mRNA is 150 bp extending from the coding sequence... RNA; no signal was observed in these ...

  

Source: Liu, David R. - Department of Chemistry and Chemical Biology, Harvard University

 

Collection: Chemistry ; Biology and Medicine

 
35 RNA and the Small Molecule World Yitzhak Tor*
 

Summary:  and small molecules.[48] Specifically, Werstuck and Green engineered unique RNA sequences into bacterial... chosen RNA aptamers, short RNA sequences that are selected in vitro to bind small molecules with high... with these plasmids. To test for the in vivo function of these ...

  

Source: Gates, Kent. S. - Departments of Chemistry & Biochemistry, University of Missouri-Columbia

 

Collection: Chemistry

 
36 Molecular Cell 24, 723734, December 8, 2006 2006 Elsevier Inc. DOI 10.1016/j.molcel.2006.11.011 Distinct Pathways for snoRNA and mRNA Termination
 

Summary:  ). Rna15 interaction with the A-rich yeast polyadenylation signal is an essential step in mRNA 30 -end... processing, and multiple proteins, RNA/DNA sequences, and chromatin configu- rations may be involved... (Figures 6C, 3B, and 3C). Considering that Nrd1 is a ...

  

Source: 

 

Collection: Biology and Medicine

 
37 Adenosine deamination in human transcripts generates novel microRNA binding sites
 

Summary:  -to-I editing can affect Drosha processing or directly alter the microRNA (miRNA) sequences responsible for mRNA... pair (bp) interaction involving base pairs 2­8 (50 to 30 ) of the mature miRNA (15). This 7 nt sequence... identified seed matches to 30 ...

  

Source: Bhattacharya, Debashish - Department of Ecology, Evolution, and Natural Resources, Rutgers University

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
38 RNA in few words Preliminaries EDIT(STEM. STEM) hardness Conclusion Comparing RNA structures with
 

Summary:  RNA in few words Preliminaries EDIT(STEM. STEM) hardness Conclusion Comparing RNA structures... Montréal hamelsyl@iro.umontreal.ca G. Blin - gblin@univ-mlv.fr Hardness of comparing RNA structures #12;RNA... in few words Preliminaries EDIT(STEM. STEM) hardness Conclusion Outline RNA in ...

  

Source: Blin, Guillaume - Institut d'électronique et d'informatique Gaspard-Monge, Universite de Marne-la-Vallee

 

Collection: Computer Technologies and Information Sciences

 
39 Annu. Rev. Phys. Chem. 2001. 52:75162 Copyright c 2001 by Annual Reviews. All rights reserved
 

Summary:  the properties of their sequence and conformational space. RNA sequences are formed from four nucleotides... , it is easy to show that the number of possible sequences for a moderate-sized RNA or a protein... of distinct RNA folds are not available, it is not possible ...

  

Source: Thirumalai, Devarajan - Institute for Physical Science and Technology, University of Maryland at College Park

 

Collection: Chemistry ; Biotechnology

 
40 Application of a Combined Sequence and Structure Alignment for
 

Summary:  Application of a Combined Sequence and Structure Alignment for RNA 3D Modeling Bachelor Thesis... is a major field of bioinformatics research. A framework for modeling RNA 3D structures based on sequence... .1 The RNA-Threading Framework . . . . . . . . . . . . . . . . . . . . . . . . . . ...

  

Source: Andrzejak, Artur - Konrad-Zuse-Zentrum für Informationstechnik Berlin

 

Collection: Computer Technologies and Information Sciences


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41 Diverse interactions of retroviral Gag proteins with RNAs
 

Summary:  2). The RNA contains two copies of the sequence UCUG­UPu­UCUG (Figure 3, blue boxes), and each... of a sequence motif and its 3D context in a dimer of vRNA. This RNA structure remains to be elucidated... in RSV [84]. The 3/3* interaction between the U-rich tRNALys3 anticodon and the ...

  

Source: Musier-Forsyth, Karin - Department of Chemistry, Ohio State University

 

Collection: Chemistry

 
42 2005 EUROPEAN MOLECULAR BIOLOGY ORGANIZATION EMBO reports VOL 6 | NO 9 | 2005 Letter from the editor: adenosine-to-inosine RNA
 

Summary:  alteration of single or multiple nucleotides, either in coding or non-coding sequences of RNA, which can... genome. The Alu element is about 280 bp long and is com- posed of two similar monomers connected by an A-rich... . In another study, Blow et al (2004) conducted a survey of RNA editing by comparing ...

  

Source: Eisenberg, Eli - School of Physics and Astronomy, Tel Aviv University

 

Collection: Materials Science ; Physics

 
43 sjkim@bi.snu.ac.kr, jwha@bi.snu.ac.kr, btzhang@bi.snu.ac.kr Analysis of microRNA-mRNA Regulatory Modules
 

Summary:  ] Huang, J.C. et al. (2006) Detecting microRNA targets by linking sequence, microRNA and gene expression... CBIT sjkim@bi.snu.ac.kr, jwha@bi.snu.ac.kr, btzhang@bi.snu.ac.kr Analysis of microRNA-mRNA... of Computer Science & Engineering, Seoul National University microRNA ...

  

Source: Zhang, Byoung-Tak - School of Computer Science and Engineering, Seoul National University

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
44 Reprint Series Qr^T1?l\rr^1? 24 June 1994, Volume 264, pp. 1870-1871 k-7v>'lJllilVyEi
 

Summary:  reconstructions with nuclear rRNA sequences and with Euglena as an outgroup yielded a tree with an iden- tical... in the ancestral kinetoplastids were represented by (G + A)-rich skeletons, with the uridines being encoded... Coding Sequences of RNA, R. Benne. Ed. (Horwood. New York, ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine

 
45 RNA editing: a driving force for adaptive Willemijn M. Gommans Sean P. Mullen and Stefan Maas*
 

Summary:  . Athanasiadis, A., Rich, A. and Maas, S., Widespread A-to-I RNA editing of Alu-containing mRNAs in the human... or in regulatory molecules, such as microRNA (miRNA) sequences.(19) At this moment, it is not clear if differences... alternatively pro- cessed ...

  

Source: Lehigh University, Department of Biological Sciences; Mullen, Sean P. - Department of Biological Sciences, Lehigh University

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
46 microRNA-mRNA sjkim@bi.snu.ac.kr, jwha@bi.snu.ac.kr, btzhang@bi.snu.ac.kr
 

Summary:  targets by linking sequence microRNA and gene expression data, In Proceedings of RECOMB, pp. 114-129, 2006... microRNA-mRNA O1,2 3 1,2,3 1 (CBIT) 2 3 sjkim@bi.snu.ac.kr, jwha... @bi.snu.ac.kr, btzhang@bi.snu.ac.kr Exploring cancer-specific microRNA-mRNA interactions by Evolutionary Layered

  

Source: Zhang, Byoung-Tak - School of Computer Science and Engineering, Seoul National University

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
47 Regulation of ARE transcript 30 end processing
 

Summary:  , in addition to the poly(A) site itself, by two major elements: an UA repeat (consensus UAUAUA) and an A-rich... (Bucheli et al, 2007; Lund et al, 2008). Similarly, the nuclear poly(A)-binding protein Nab2 binds an A-rich... ) performed with total RNA extracted from cells expres- sing either full-length Cth2 or Cth2D1­86. ...

  

Source: Bedwell, David M. - Department of Microbiology, University of Alabama at Birmingham

 

Collection: Biology and Medicine

 
48 Supplementary Material PETcofold: Predicting conserved interactions and structures
 

Summary:  alignments of RNA sequences Stefan E. Seemann , Andreas S. Richter , Tanja Gesell, Rolf Backofen and Jan... family sequence alignment of each sRNA was downloaded from the Rfam database 9.1 (Gardner et al., 2009... of the sequence that is involved in the ...

  

Source: Will, Sebastian - Lehrstuhl für Bioinformatik, Institut für Informatik, Albert-Ludwigs-Universität Freiburg

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
49 Short communication Age-related gene-specific changes of A-to-I mRNA editing in the human brain
 

Summary:  ­43. Athanasiadis, A., Rich, A., Maas, S., 2004. Widespread A-to-I RNA editing of Alu- containing mRNAs in the human... sequenc- ing determines global regulation of RNA editing during brain development. Genome Res.. A... Short communication Age-related gene-specific changes of A-to-I ...

  

Source: de Magalhães, João Pedro - School of Biological Sciences, University of Liverpool

 

Collection: Biology and Medicine

 
50 RNAs Everywhere: Genome-Wide Annotation of Structured RNAs
 

Summary:  by recruiting a non- DNA-binding epigenetic regulator to the template sequence suggest that direct DNA­RNA... complexes allowing them to bind DNA and RNA in a sequence-specific way. MicroRNAs, one of the most prominent... , however, this approach is limited by the relatively fast evolution of most ncRNAs. ...

  

Source: Will, Sebastian - Lehrstuhl für Bioinformatik, Institut für Informatik, Albert-Ludwigs-Universität Freiburg

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
51 A glimpse of Non Coding RNA Introduction
 

Summary:  to the sequence of Amino acids - non coding RNA : function linked to the sequence and the structure... and snoRNA slow rate of sequence evolution -> function linked to hybridisation with other nucleic acids... for identifying fRNA structures in ...

  

Source: Goldschmidt, Christina - Department of Statistics, University of Warwick

 

Collection: Mathematics

 
52 Two Distinct Binding Modes of a Protein Cofactor with its Target RNA
 

Summary:  the P1 helix and the A-rich loop in the J4/5 region in the catalytic core of the bI5 RNA (Figure 1(a... transcribed RNA that spans the majority of the bI5 sequence, plus two synthetic RNA or DNA oligonucleotides... labeled with biotin to allow surface immobilization. The ...

  

Source: Heller, Eric - Departments of Chemistry & Physics, Harvard University

 

Collection: Materials Science ; Physics

 
53 RNA structure: crystal clear? Jennifer A Doudna* and Jamie H Cate
 

Summary:  . The A-rich bulge (Fig. 2) coordinates two Mg2+ ions via its phosphate oxygens, allowing the backbone... T_etraloop Heceptol P6b 5a -rich 3ulge 5c/L5c 5b P~abc The Tetrahymenagroup I intron P4-P6 domain... °°]. The orientation is rotated 180" around the vertical axis of the secondary structure to emphasize the ...

  

Source: Doudna, Jennifer A. - Department of Molecular and Cell Biology, University of California at Berkeley

 

Collection: Biology and Medicine

 
54 CLASS 1.5: 02/01/07 MESSENGER RNA (mRNA)
 

Summary:  sequence #12;13 E. RNA Transport and Localization: 1. Eukaryotic mRNAs are transported - Transcription... 1 CLASS 1.5: 02/01/07 MESSENGER RNA (mRNA) A. Introduction: 1. Major types of RNA in cells a. mRNA... = b. Transfer RNA ...

  

Source: Andres, Andrew - School of Life Sciences, University of Nevada at Las Vegas

 

Collection: Biology and Medicine

 
55 Proc. Nati. Acad. Sci. USA Vol. 89, pp. 11944-11948, December 1992
 

Summary:  /messenger RNA chimeric molecules in vitro, the initial step of RNA editing, is dependent on an anchor sequence... - edited ND7 mRNA from L. tarentolae. The products of this reaction were analyzed by cloning and sequencing... was performed to establish the role ofthe "anchor" ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine

 
56 VIROLOGY 231, 182191 (1997) ARTICLE NO. VY978532
 

Summary:  of inoculated plants. BWYV, which shares extensive amino acid sequence ence of ST9a RNA and satRPV RNA in both... and ST9a which show significant sequence similarities to sub- RNA (Sanger et al., 1994). The suppressive... Lett. 292, 213­cis-acting sequences involved ...

  

Source: Miller, W. Allen - Departments of Plant Pathology & Biochemistry, Biophysics and Molecular Biology, Iowa State University

 

Collection: Biology and Medicine

 
57 NON-CODING RNAs Alexander Donatha, Sven Findeia, Jana Hertela, Manja Marza, Wolfgang Ottoa, Christine
 

Summary:  possible that the P RNA sequences are derived from each other that they have escaped detection so far... distances between snoRNA coding sequence and conserved intron elements (e.g., 3'-end and branch point... subsequent (SL2) mRNA sequences. This leads to the ...

  

Source: Stadler, Peter F. - Institut für Informatik, Universität Leipzig

 

Collection: Biology and Medicine

 
58 BioMed Central Page 1 of 9
 

Summary:  -supplied RNA sequences, and helps stimulate the search for novel RNAs based on predicted candidate motifs... sequence or the length of an RNA mole- cule, although the length can be approximated. Further- more... (or hypothetical) RNA motif in the database, with links to other ...

  

Source: Schlick, Tamar - Department of Chemistry, New York University

 

Collection: Chemistry

 
59 Recognition of Cognate Transfer RNA by the 30S
 

Summary:  the sequence of the polypeptide chain. Discrimination against noncognate tRNA, which generally has two or three... , Washington, DC, 1995), pp. 207­223. 32. N. C. Seeman, J. M. Rosenberg, A. Rich, Proc. Natl. Acad. Sci. U... Recognition of Cognate Transfer RNA by the 30S Ribosomal Subunit ...

  

Source: Ramakrishnan, Venki - Laboratory of Molecular Biology, MRC

 

Collection: Biology and Medicine

 
60 Principles of RNA Compaction: Insights from the Equilibrium Folding Pathway of the P4-P6 RNA Domain
 

Summary:  . Principles of RNA Compaction 1199 #12;involvement of Mg2C in establishing the structure of the A-rich bulge... that DNA of the corresponding sequence can adopt structures similar to tRNA.6 Early work with catalytic... ). Disruption of the tetraloop or its receptor abolished the second phase, whereas ...

  

Source: Das, Rhiju - Department of Biochemistry, Stanford University; Herschlag, Dan - Department of Biochemistry, Stanford University

 

Collection: Biology and Medicine


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61 Molecular Cell, Vol. 13, 201212, January 30, 2004, Copyright 2004 by Cell Press The Glc7p Nuclear Phosphatase
 

Summary:  with the A-rich and small nucleolar RNA 3 -ends. J. Biol. Chem. 278, 33000­33010.yeast polyadenylation signal... with polyadenylated mRNA (Lee et al., 1996; Lei et al., 2001). Npl3p has sequence similarity to mam- malian SR... Phosphatase Promotes mRNA Export by Facilitating Association ...

  

Source: Lim, Wendell - Departments of Cellular and Molecular Pharmacology & Biochemistry and Biophysics, University of California at San Francisco

 

Collection: Biology and Medicine

 
62 Targeted mRNA degradation by double-stranded RNA in vitro
 

Summary:  in this reaction is sequence specific, is promoted by dsRNA but not single-stranded RNA, functions by specific mRNA... that RNAi functions post-transcrip- tionally is as follows: dsRNA corresponding to intron sequences does... not produce RNAi (Montgomery et al. ...

  

Source: Bartel, David - Whitehead Institute for Biomedical Research & Department of Biology, Massachusetts Institute of Technology (MIT)

 

Collection: Biotechnology ; Biology and Medicine

 
63 JOURNAL OF VIROLOGY, 0022-538X/00/$04.00 0
 

Summary:  promoter is 44 nt long (nt 5345 to 5388), with most of the sequence located downstream of sgRNA3 start site... (nt 5348). For both promoters, additional sequences upstream of the start site enhanced sgRNA promoter... upstream of the transcription initiation site. Comparison of RNA ...

  

Source: Miller, W. Allen - Departments of Plant Pathology & Biochemistry, Biophysics and Molecular Biology, Iowa State University

 

Collection: Biology and Medicine

 
64 Genome Biology 2007, 8:R29 commentreviewsreportsdepositedresearchrefereedresearchinteractionsinformation
 

Summary:  :1802-1809. 13. Athanasiadis A, Rich A, Maas S: Widespread A-to-I RNA editing of Alu-containing m... -exon is eliminated by an exceptionally efficient RNA editing event. The sequence surrounding this editing site... . Conclusion: Our results show that the abundant RNA ...

  

Source: Ast, Gil - Department of Molecular Genetics and Biochemistry, Tel Aviv University; Sorek, Rotem - Department of Molecular Genetics, Weizmann Institute of Science

 

Collection: Biology and Medicine

 
65 Determinants of targeting by endogenous and exogenous microRNAs and siRNAs
 

Summary:  or uridine opposite miRNA base 9, independent of complementarity to the siRNA/miRNA. Increased sequence... . 2005). Recent analyses of mRNA sequence and expression patterns have detected pervasive effects of mi... the 39 end of the transfected miRNA by unrelated ...

  

Source: Hornstein, Eran - Department of Molecular Genetics, Weizmann Institute of Science

 

Collection: Biology and Medicine

 
66 ADAR Proteins: Double-stranded RNA and Z-DNA Binding Domains
 

Summary:  .................................................................. 11 5.1 Structural Characteristics of a dsRNA Binding Domain ...................... 11 5.2 Sequence... ; Heale et al. 2009). MiRNA ed- iting can also affect gene targeting when the seed sequence of the miRNA... , and that ...

  

Source: Ecole Polytechnique, Centre de mathématiques

 

Collection: Mathematics

 
67 Straightening of bulged RNA by the double-stranded RNA-binding domain from the protein kinase PKR
 

Summary:  ). A-rich bulges cause sharp bends in the helix axis of dsRNA and are present in several known PKR... ) involving 2 -OHs and phosphates (8, 10, 12). Lack of obvious RNA sequence specificity is consistent... , followed by cooling to 22°C for 20 min. Characterization of Chimeras and Chimeric Duplexes. ...

  

Source: Bevilacqua, Philip C.- Department of Chemistry, Pennsylvania State University

 

Collection: Chemistry

 
68 Genetics and Cellular Function DNA and RNA the nucleic acids
 

Summary:  of RNA that plays a role in synthesizing one or more proteins · Amino acid sequence of a protein... triplet ­ a sequence of 3 DNA nucleotides that codes for 1 amino acid ­ codon - the 3 base sequence in mRNA... Incoming aminoacyl- tRNA hydrogen bonds via its ...

  

Source: Morrell, Thomas E. - Department of Biology, Ball State University

 

Collection: Environmental Sciences and Ecology

 
69 Cell, Vol. 97, 491502, May 14, 1999, Copyright 1999 by Cell Press A Detailed View of a Ribosomal Active Site
 

Summary:  , and the register of the sequence in this of the RNA­CTD hydrogen bonds involve a main chain amide or carbonyl... but of the few side chains that formally "reads" the local RNA sequence. Two of the most important... -ing requirements, the high sequence conservation of the NTD residues ...

  

Source: Ramakrishnan, Venki - Laboratory of Molecular Biology, MRC

 

Collection: Biology and Medicine

 
70 Leading Edge Regulatory RNAs in Bacteria
 

Summary:  the simplest bacterial RNA regulatory elements are sequences at the 50 end of mRNAs that can adopt different... of termi- nator or antiterminator structures in the mRNA. Later studies showed that sequences found... RNAs and that other leader sequences, known as ``RNA ...

  

Source: Storz, Gisela - Cell Biology and Metabolism Branch, National Institute of Child Health and Human Development

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
71 COMMUNICATION The Fastest Global Events in RNA Folding
 

Summary:  to this second early folding intermediate requires RNA sequence motifs that eventually mediate native long... , are the following: Q1 (L2 ! UNCG), GGCAUGCACCU (39­49) to CUUCGGU; Q2 (A-rich-bulge ! U), AAUAAG (183­ 188... by the quintuple- knockout mutant. Rather, sequence motifs required for the formation ...

  

Source: Das, Rhiju - Department of Biochemistry, Stanford University; Herschlag, Dan - Department of Biochemistry, Stanford University

 

Collection: Biology and Medicine

 
72 JOURNAL OF VIROLOGY, July 1995, p. 40204028 Vol. 69, No. 7 0022-538X/95/$04.00 0
 

Summary:  sequences were synthe- sized by using T7 RNA polymerase (23). After phenol-chloroform extraction and ethanol... and sequence homologous to the 5 end of sat-RNA C, including the deletions or base alterations, were... of the 3 -end sequences of minus-strand sat-RNA C ...

  

Source: Simon, Anne - Department of Cell Biology and Molecular Genetics, University of Maryland at College Park

 

Collection: Biology and Medicine

 
73 Metal-binding sites in the major groove of a large ribozyme domain
 

Summary:  in the A-rich bulge coordinate Mg2+ in the native RNA [12], and may coordinate Sm3+ in a similar manner... ] which was readily interpretable. Samarium bridges phosphate oxygens in the A-rich bulge There are two... in the phosphate backbone of a corkscrew motif called the A-rich bulge. Phosphate oxygens from ...

  

Source: Doudna, Jennifer A. - Department of Molecular and Cell Biology, University of California at Berkeley

 

Collection: Biology and Medicine

 
74 Expanding the genetic code Only 20 amino acids are used in the biosynthesis of proteins
 

Summary:  genetic information in the form of RNA sequence into the amino acid sequence in protein Aminoacyl... ;Hendrickson et al, ARB 73, 147 (2004) #12;Biosynthetic incorporation of nonnatural amino acids tRNA converts... synthetase (E) activates amino acids and loads them onto tRNA E + ATP + AA ...

  

Source: Park, Sheldon - Department of Chemical and Biological Engineering, State University of New York at Buffalo

 

Collection: Biology and Medicine ; Biotechnology

 
75 Probing the structure of the Escherichia coli 10Sa RNA (tmRNA)
 

Summary:  by single-stranded A-rich sequence stretches. A tRNA-like domain, including an already reported acceptor... with nine other tmRNA sequences, suggest the presence of several tertiary interactions, including... switching of the ribosome from the truncated messenger RNA ...

  

Source: Rennes, Université de - Faculté de Pharmacie

 

Collection: Biology and Medicine

 
76 Cell, Vol. 123, 181193, October 21, 2005, Copyright 2005 by Elsevier Inc. A Nuclear RNA Is
 

Summary:  . Some of the repetitive sequences in DNA are transcribed and are found in heterogeneous nuclear RNA (hnRNA... and mCAT2 mRNA differ only in their 5#UTRs and the existence of an additional 4.5 kb of 3#UTR sequence... unique to CTN-RNA (Figure 1A). The difference in ...

  

Source: Bass, Brenda L. - Departments of Biochemistry & Human Genetics, University of Utah

 

Collection: Biology and Medicine

 
77 Protein factors in pre-mRNA 3'-end processing C. R. Mandel, Y. Bai and L. Tong*
 

Summary:  by four sequence elements: the AU-rich efficiency element (EE), the A-rich positioning element (PE... ]. The position and sequence of the PE are critical for efficient 3'-end processing. Al- though many A-rich... F-64 recognizes the G/U-rich DSE, yeast Rna15p recognizes the ...

  

Source: Tong, Liang - Department of Biological Sciences, Columbia University

 

Collection: Biology and Medicine

 
78 [121 SOLVINGLARGERNA STRUCTURES 169 [i 2] Solving Large RNAStructures by
 

Summary:  , S. H. Kim, and A. Rich, Nature 248, 20 (1974). 3j. D. Robertus, J. E. Ladner, J. T. Finch, D. Rhodes... )*A-rich Bulge ~5c/L5c Tetralool~ ....... ~P Tetra Receptor ReceI FIG. 1. Temperature factor (B factor... , deletions, and sequence changes are allowed while maintaining function. Chemical probes of ...

  

Source: Doudna, Jennifer A. - Department of Molecular and Cell Biology, University of California at Berkeley

 

Collection: Biology and Medicine

 
79 Vol. 4, No. 3MOLECULAR AND CELLULAR BIOLOGY, Mar. 1984, p. 415-423 0270-7306/84/030415-09$02.00/0
 

Summary:  . Pederson. 1976. Poly(A)-rich ribonucleopro- tein complexes of HeLa cell messenger RNA. J. Biol. Chem. 251... Ribonucleoproteins in Cells Treated with Inhibitors of mRNA Transcription GIDEON DREYFUSS,* STEPHEN A. ADAM, AND YANG... light brings about cross-linking of polyadenylated mRNA to a set of ...

  

Source: Dreyfuss, Gideon - Department of Biochemistry and Biophysics, University of Pennsylvania

 

Collection: Biology and Medicine

 
80 A chloroplast RNA binding protein from stromal thylakoid membranes specifically binds to the 5 untranslated region of the psbA mRNA
 

Summary:  protein. It preferentially binds to the 5¢ UTR of the psbA message determined by an A-rich region eight... generated by PCR with the following oligonucleotides: psbA RNA (wild-type sequence of the psbA mRNA... CTATAGGGTACCATGCTTTTAATAGAAG-3¢) and 2054 (5¢-GATCCATGGTCATATGTTAATTTTTTTAA AG-3¢); ...

  

Source: Kück, Ulrich - Fakultät für Biologie, Ruhr-Universität Bochum

 

Collection: Biology and Medicine


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81 In vitro uridine insertion RNA editing mediated by cis-acting guide RNAs
 

Summary:  dependent on the pres- ence of an extended 59 and 39 sequence in the mRNA+ Upon the addition of cognate gRNA... efficiencies+ Use of a cis-acting gND7[ 3], which has a wild-type anchor sequence, resulted in the loss of gRNA... sequence (Fig+ 4A, lane 11)+ It should ...

  

Source: Simpson, Larry - Department of Microbiology, Immunology and Molecular Genetics, University of California at Los Angeles

 

Collection: Biology and Medicine

 
82 Three-dimensional motifs from the SCOR, structural classication of RNA database: extruded strands,
 

Summary:  similar to the role of the A-rich bulge in nucleating the folding of the group I intron. Sequence... mwl (25) and 1o9m (26). The three-residue extruded strand in the group I intron A-rich bulge, entry 1... invariant arginine residues in a highly conserved amino acid sequence of the 4.5S ...

  

Source: Brenner, Steven E. - Department of Plant and Microbial Biology, University of California at Berkeley

 

Collection: Biotechnology

 
83 An Upstream Hfq Binding Site in the fhlA mRNA Leader Region Facilitates the OxyS-fhlA Interaction
 

Summary:  binding motif (ARN)x in the leader sequence was interesting. These A-rich stretches are now widely... than to an A-rich RNA that resembles an alternative mRNA. Whether these findings are consistent... which inadvertently removed a critical element within the leader ...

  

Source: Feig, Andrew - Department of Chemistry, Wayne State University

 

Collection: Chemistry ; Biology and Medicine

 
84 Bioinformatic Approaches for Identification of A-to-I Editing Sites
 

Summary:  by these efforts. References Athanasiadis A, Rich A, Maas S (2004) Widespread A-to-I RNA editing of Alu... -to-I RNA editing was reported--editing of an adenosine nucleotide within the coding sequence... ­2 mismatches per 100 bp sequenced. Another important cause of ...

  

Source: Eisenberg, Eli - School of Physics and Astronomy, Tel Aviv University

 

Collection: Materials Science ; Physics

 
85 Identification of the Hfq-binding site on DsrA RNA: Hfq binds without altering DsrA secondary structure
 

Summary:  poly(U)- and poly(A)-rich RNA (Se- near and Steitz 1976; Zhang et al. 2002); therefore, we tested... sequence in the 5 -untrans- lated region of the rpoS mRNA (Fig. 1B; Lease et al. 1998; Majdalani 1998... Identification of the Hfq-binding site on DsrA RNA: Hfq binds without altering DsrA ...

  

Source: Feig, Andrew - Department of Chemistry, Wayne State University

 

Collection: Chemistry ; Biology and Medicine

 
86 arXiv:q-bio.MN/0412027v25Feb2005 An RNA-centered view of eukaryotic cells
 

Summary:  phylogenetic trees. A key set of proteins and nucleic acid sequences for such phylogenetic analysis are the RNA... proteins. Be- cause it is known that RNA polymerases can synthe- size polynucleotide sequences from... , 1474 (2004). [8] A. Herbert and A. Rich, Nat. ...

  

Source: Tannenbaum, Emmanuel David - Department of Chemistry and Chemical Biology, Harvard University

 

Collection: Physics ; Chemistry

 
87 HIV-1 Modulates the tRNA Pool to Improve Translation Anna van Weringh1,2
 

Summary:  DJ, et al. (11 co-authors). 2009. The A- rich RNA sequences of HIV-1 pol are important... RNAs decoding A-ending codons, required for the expression of HIV's A-rich genome, are highly enriched. Because... 1987). Although there have been claims that the A-richness in a ...

  

Source: Xia, Xuhua - Department of Biology, University of Ottawa

 

Collection: Biology and Medicine

 
88 Implication of the tRNA Initiation Step for Human Immunodeficiency Virus Type 1 Reverse Transcriptase in the Mechanism of 3-Azido-3-deoxythymidine (AZT)
 

Summary:  consists of (i) an 18-nucleotide RNA primer whose sequence is identical to the 3 end of the human lysyl tRNA... and (ii) a 36-nucleotide RNA template whose sequence is identical to the HIV genome and which contains... studies in which the RNA template is identical to ...

  

Source: Vaccaro, Joe - Department of Biochemistry, Tulane University

 

Collection: Biology and Medicine

 
89 UNIVERSITY OF CALIFORNIA CHARACTERIZATION OF ARCHAEAL SPECIES THROUGH
 

Summary:  ......................................................................................132 Chapter 6 GtRNAdb: A database of transfer RNA genes detected in genomic sequence... .................................................................................47 Figure 3.1 Alignment of tRNA promoters and 5-leader ...

  

Source: 

 

Collection: Engineering ; Energy Storage, Conversion and Utilization

 
90 BIOINFORMATICS APPLICATIONS NOTE Vol. 24 no. 17 2008, pages 19511952
 

Summary:  explores RNA conformations using discrete molecular dynamics simulations of input RNA sequences. Starting... as a function of total number of nucleotides in RNA. For intermediate-length RNA sequences (<50 nt), simulation... ability of DMD enables rapid structure ...

  

Source: Dokholyan, Nikolay V. - Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill

 

Collection: Physics ; Biology and Medicine

 
91 Structural Characterization of RNA-Binding Sites of Proteins: Preliminary Fadi Towfic
 

Summary:  -binding proteins have been identified using sequence-based analyses of the major groups of RNA- binding proteins... - velopment of machine learning approaches to amino acid sequence-based prediction of RNA-binding residues... - tion of putative protein-binding RNA residues. · ...

  

Source: Giles, C. Lee - Department of Computer Science and Engineering & College of Information Sciences and Technology, Pennsylvania State University, Pennsylvania State University; Honavar, Vasant - Department of Computer Science, Iowa State University

 

Collection: Biology and Medicine ; Computer Technologies and Information Sciences

 
92 MOLECULAR AND CELLULAR BIOLOGY, 0270-7306/97/$04.00 0
 

Summary:  and 25 kDa. The 120-kDa protein was also obtained by affinity purification with the RNA zipcode sequence... or in response to chemotactic agents. The sequence elements required for -actin mRNA sorting have recently been... -actin mRNA sequence informa- tion is ...

  

Source: Singer, Robert H. - Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Yeshiva University

 

Collection: Biology and Medicine

 
93 Evidence for large diversity in the human transcriptome created by Alu RNA editing
 

Summary:  deaminases that act on RNA. Annu. Rev. Biochem., 71, 817­846. 2. Athanasiadis,A., Rich,A. and Maas,S. (2004... as guanosines in the RNA sequence (1). Until recently, this modification was considered to be rare in the human... are typically supported by only a single ...

  

Source: Church, George M. - Wyss Institute for Biologically Inspired Engineering & Department of Genetics, Harvard University

 

Collection: Biotechnology

 
94 Functional specificity of shuttling hnRNPs revealed by genome-wide analysis of their RNA binding profiles
 

Summary:  - vielle-Sebastia et al. 1998). An A-rich sequence was identified that strongly correlates with association... was not searched for expanded motifs. This analysis extended the A-rich sequence found with Nab2 to 12 nt... to the central A-rich motif may suggest an RNA ...

  

Source: Walter, Peter - Department of Biochemistry and Biophysics, University of California at San Francisco

 

Collection: Biology and Medicine

 
95 A potential mechanism for selective control of cap-independent translation by a viral
 

Summary:  A potential mechanism for selective control of cap-independent translation by a viral RNA sequence... enhancer sequence (39TE) located near the 39 end of barley yellow dwarf virus (BYDV) genomic RNA. The role... of BYDV sequence in LUC869) corresponds precisely to the 59-terminal base of ...

  

Source: Miller, W. Allen - Departments of Plant Pathology & Biochemistry, Biophysics and Molecular Biology, Iowa State University

 

Collection: Biology and Medicine

 
96 Translational control in positive strand RNA plant viruses Theo W. Dreher a,*, WR Allen Miller b,c
 

Summary:  in an A-rich tract of purines, and (GAAA)16 had maximum activity (Dorokhov et al., 2002). Its mechanism... (BYDV) RNA harbors an approximately 100-nt sequence that facilitates highly efficient cap... of the viral mRNA contains complete information in the form of cis-acting sequences to ...

  

Source: Miller, W. Allen - Departments of Plant Pathology & Biochemistry, Biophysics and Molecular Biology, Iowa State University

 

Collection: Biology and Medicine

 
97 ORIGINAL PAPER The small RNA Aar in Acinetobacter baylyi: a putative regulator
 

Summary:  interactions showed rather a sequestering than liberating potential toward the Shine Dalgarno sequence of the mRNA... and putative mRNA targets. Letters in bold indicate the predicted Shine Dalgarno sequences of the corresponding... of the interaction site within the Aar and mRNA ...

  

Source: Will, Sebastian - Lehrstuhl für Bioinformatik, Institut für Informatik, Albert-Ludwigs-Universität Freiburg

 

Collection: Computer Technologies and Information Sciences ; Biology and Medicine

 
98 Virus Research 119 (2006) 6375 Cap-independent translation of plant viral RNAs
 

Summary:  , T.J., Atabekov, J.G., 2002. Polypurine (A)- rich sequences promote cross-kingdom conservation... sequence are clearly important. One loop (L3) of PK1 is complementary to 1117­1123 nt of 18S rRNA... with complementary sequence to the 18S rRNA in ...

  

Source: Miller, W. Allen - Departments of Plant Pathology & Biochemistry, Biophysics and Molecular Biology, Iowa State University

 

Collection: Biology and Medicine

 
99 The EMBO Journal Vol.17 No.20 pp.60616068, 1998 The OxyS regulatory RNA represses rpoS translation
 

Summary:  preferentially binds A-rich sequences (Senear and Steitz, 1976). The OxyS RNA may act on rpoS by either affecting... that the rpoS ribosome binding site is occluded, and that Hfq binding to A-rich sequences in this region... activity. The Hfq protein preferentially binds ...

  

Source: Storz, Gisela - Cell Biology and Metabolism Branch, National Institute of Child Health and Human Development

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
100 Mol. Biol. Evol. 18(1):7484. 2001 2001 by the Society for Molecular Biology and Evolution. ISSN: 0737-4038
 

Summary:  by an A-rich tail, and an A-rich region remains between the two arms of dimeric Alu sequences (Deininger... RNAArg-related regions separated by a 39-bp spacer. Other tRNA-unrelated sequences include a 5- bp leader preceding... . The right tRNA-like unit also contains a ...

  

Source: Feschotte, Cedric - Department of Biology, University of Texas at Arlington

 

Collection: Biology and Medicine


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