This tool designs probes to be used with the NEBNext RNA Depletion Core Reagent Set or to supplement an existing NEBNext Depletion Kit for the depletion of unwanted RNA species.
 
Please provide RNA (not cDNA) in FASTA format (5′→3′). See sample RNA input from NCBI.
Multiple sequences in FASTA format can be entered simultaneously.
This is suitable if your input RNA sequences are repetitive and/or if you would like to decrease the number of probes generated. We suggest somewhere between 0.6 and 0.8 as a reasonable range for redundant inputs. The default value of 0.7 indicates that probes with greater than 70% sequence identity will be clustered. See example.

 
 
Trying something different?
If this tool does not support your use-case, please include your email and a brief description of your problem below in order to request a collaboration with a member of our development team. For example, if you are working with organisms without high quality rRNA reference sequences, we may be able to help design probes targeting high frequency sequences in your total RNA data.