Computational protocol: Stem-loop structure preference for site-specific RNA editing by APOBEC3A and APOBEC3G

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Protocol publication

[…] 18 nucleotides (with 7 nucleotides flanking on each side of the tetra-loop sequence) of WT SDHB, TMEM109 and APP RNAs were folded using the Mfold nucleic acid folding program (). 18 nucleotides of WT PRPSAP2 RNA were folded using both Mfold and RNAfold 2.3.2 (; ). No optional parameters were used. A single structure along with the minimum free energy value for the structure was obtained for the selected RNAs and is represented in . […]

Pipeline specifications

Software tools Mfold, RNAfold
Application RNA structure analysis
Organisms Viruses
Chemicals Cytidine, Cytosine, Nucleotides