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mRNA Decapping Selection Chart

mRNA Decapping Activities of Available Enzymes



The products of mRNA decapping reactions vary according to the choice of enzyme. The structure of the resultant products will influence whether the decapped RNA can be recapped or used in a ligation reaction.


Products Cap* -> monophosphate Cap* -> diphosphate triphosphate -> monophosphate NAD Cap -> monophosphate Removing Biotinylated Cap Recommended Applications
RppH
Yes
No
Yes
No
Yes
  1. Targeted analysis of riphosphorylated RNA.
  2. Removal of biotinylated caps.
yDcpS
No
Yes
No
No
No
  1. Cap removal and recapping with Vaccinia Capping System.
mRNA Decapping Enzyme
Yes
No
Yes
No
Yes
  1. Targeted analysis of capped RNAb.
  2. Removal of biotinylated caps.
NudC Pyrophosphatase
Noa
No
No
Yes
No
  1. Analysis of NAD-capped or adenylated RNA.

Bold - NEB recommended enzyme for indicated substrate.
*Cap refers to both Cap0 and Cap1 forms.
a - NudC is capable of decapping limited range of m7G-capped mRNAs, but is not suitable for general decapping use.
b - When only capped transcripts are desired for analysis, prior treatment with phosphatase is required to remove existing tri-, di-, and monophosphorylated transcripts.