Ted that DNA and RNA have the unique ability to distinguish matched from mismatched sequences, but there are limits. As you change the length, base composition and add modifications to an oligonucleotide, you change its ability to distinguish match from mismatch. In the early days of antisense therapeutics, there was a theory that “DNA Drugs” could be treated just like small molecule therapeutics
Alternative Cycle
Alternatively, a 33 minute coupling time using 0.45 M tetrazole, oxidation using low-water iodine (40-4032-XX) followed by capping with 6.5% DMAP as Cap B will give acceptable results.
RNA Control by Photoreversible Acylation
Willem A. Velema , Anna M. Kietrys, and Eric T. Kool* Department of Chemistry, Stanford University, Stanford, California 94305, United States J. Am. Chem. Soc., 2018, 140 (10), pp 3491495 Abstract: External photocontrol over RNA function has emerged as a useful tool for studying nucleic acid biology. Most current methods rely on fully synthetic nucleic acids with photocaged nucleobases, limiting application to relatively short synthetic RNAs. Here we report a method to gain photocontrol over RNA by postsynthetic acylation of 2′-hydroxyls with photoprotecting groups. One-step introduction of these groups efficiently blocks hybridization, which is restored after light exposure. Polyacylation (termed cloaking) enables control over a hammerhead ribozyme, illustrating optical control of RNA catalytic function. Use of the new approach on a transcribed 237 nt RNA aptamer demonstrates the utility of this method to switch on RNA folding in a cellular context, and underlines the potential for application in biological studies.
Methylene Blue II – A Unique Dye
Methylene Blue, which belongs to the phenothiazine family of dyes, is a unique dye with a variety of useful properties. Despite its high extinction coefficient in the visible region (81,000 L/mol.cm), it is weakly fluorescent due to its high rate of intersystem crossing from the S1 excited state to the T1 triplet state. This property makes it an excellent photosensitizer, and it has been used extensively to produce highly reactive singlet oxygen. In DNA, singlet oxygen leads to the oxidation of guanosine, resulting in the formation of 8-oxo-dG. Methylene Blue was subsequently used to determine that DNA polymerase eta (Pol ) was responsible for bypassing this lesion during replication.1 Another interesting property of methylene blue is its ability to both intercalate in duplex DNA, preferring G:C over T:A base pairs and its ability to act as an electrochemical redox probe.147127-20-6 web 2 Exploiting this fact, Pheeny and Barton tethered methylene blue to a single-stranded probe attached to a gold surface to interrogate target oligonucleotides.362665-56-3 Molecular Weight They were able to detect a single mismatch in the probetarget duplex due to the reduced efficiency of charge transport through a DNA duplex containing a mismatch base pair.PMID:20945554 3 In a comprehensive study of redoxactive reporters for electrochemical biosensors, it was found that methylene blue was unmatched in performance.4 In an earlier Glen Report,5 we introduced Methylene Blue C3 Phosphoramidite (1). Unfortunately, this product proved to have quite limited stability and has been discontinued. As an additional option, we introduced Methylene Blue NHS Ester (2) to allow researchers to label amino-modified oligonucleotides with this interesting dye. With the encouragement and technical expertise of Carole Chaix and her colleagues at the University.MedChemExpress (MCE) offers a wide range of high-quality research chemicals and biochemicals (novel life-science reagents, reference compounds and natural compounds) for scientific use. We have professionally experienced and friendly staff to meet your needs. We are a competent and trustworthy partner for your research and scientific projects.Related websites: https://www.medchemexpress.com
