End Labeling RNA for Structural Analysis
- Evaluate of the footprint of a protein on an RNA
- Deduce the secondary or tertiary structure of an RNA during gene regulation or RNA catalysis
- Identify bases recognized by the cellular machinery, or other RNA-binding molecules
Ambion offers two products for the preparation of high specific activity end-labeled probes for RNA structural assessment: KinaseMax™ 5' End Labeling Kit, and T4 RNA Ligase, an enzyme that can add labeled nucleotides to the 3' end of RNA. The KinaseMax Kit contains Calf Intestinal Phosphatase (CIP) and associated buffers for removal of terminal phosphates from RNA or DNA prior to labeling. A novel phosphatase removal reagent ensures elimination of CIP without organic extractions and minimizes loss of nucleic acids. The subsequent kinase reaction with T4 polynucleotide kinase in the supplied kinase buffer leads to very efficient 5' end labeling of RNA or DNA. Ambion also offers T4 RNA ligase in two sizes for 3' end labeling of the RNA.