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There exists a facile computational link between RNA sequence and secondary structure due to the considerable efforts toward RNA secondary structure prediction.
We studied the relationship between λ and the sequence length by utilizing RNA folding, which is a well-studied prototype of genotype-phenotype map, where the genotype is the primary structure of an RNA sequence and the phenotype is the minimum free energy secondary structure of the RNA sequence.
Liu and his colleagues [ 12] integrated the RNA sequence and secondary structures to to identify the consensus sequence of protein-RNA binding sites.
Pairwise RNA sequence and secondary structure alignments performed using RNAstructure Dynalign [51] failed to identify significant RNA structural similarities in EIAV RBR-1 and RBR-2 (data not shown).
Stefl, R., Skrisovska, L. & Allain, F. H. RNA sequence- and shape-dependent recognition by proteins in the ribonucleoprotein particle.
Seibel, P. N., Müller, T., Dandekar, T., Schultz, J. & Wolf, M. 4SALE a tool for synchronous RNA sequence and secondary structure alignment and editing.
The CRISPR Cas editing system needs just two components to modify DNA: a guide RNA sequence and a Cas nuclease enzyme, with Cas9 the most commonly used.
Ribozymes are enzymatic RNA molecules that can be engineered to cleave specifically a target RNA sequence and are thus applicable to target viral RNA to inhibit viral replication.
Parameters related to RNA sequence and structure have a strong impact on various steps along the silencing pathway and build the backbone of many siRNA design tools.
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It will be interesting to investigate such RNA sequence and/or structural preferences of the Dcr1 dsRBD in future studies.
RT-PCR was performed to detect RSV RNA sequence and identify RSV Groups in samples that were positive by DFA.
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