The TnpB protein of IS200/IS605 is thought to be the predecessor of the class 2 type V CRISPR effector Cas12. Composed of the minimal structural and functional core of the Cas12 family, TnpB emerged as the most compact genome editor in eukaryotic cells. Here we present a version of the Deinococcus radiodurans TnpB optimized for use in mammalian cells and define rules for efficient ωRNA design, using an extensive dataset from 10,211 sequences. We devised a deep learning model to predict optimal ωRNAs and demonstrate high correlation with experimental results when applied to various endogenous target sites in mammalian cells.

You can predict the efficiency of your TnpB target sequence here:
Note: absolute editing efficiency may vary depending on your experimental setup regarding TnpB delivery to the cells of interest and exposure to the target DNA.

Example sequences:
Target-1: ATCACCATCATGGTTCTTAT
Target-2: AACCCTCTGCCAGGAGAAGA
Target-3: AGAGTATGTGTGAATCTTAT
Target-4: AAAGAGGACAAGGGAAAAAT (Pattern A)
Target-5: CCCTTTTGTGGTTTGGGGGG (Pattern B)

Handling Mismatch Cases: Utilize this tool to estimate the editing efficiency in scenarios where there are mismatches between the target DNA sequence and its altered counterpart.

Please note: This utility is designed for individual predictions. Batch processing is not supported for efficiency predictions involving mismatch pairs. Input the original sequence alongside its mismatch pair, separated by a comma, as illustrated below. Ensure there are no spaces around the comma.
Reminder: The actual editing efficiency may vary based on your experimental conditions, including the method of TnpB delivery and the degree of exposure to the target DNA.

Example Sequences:
Target-1: ATCACCATCATGGTTCTTAT,GTCACCATCATGGTTCTTAT (single mismatch, A->G)
Target-2: AACCCTCTGCCAGGAGAAGA,AACCTCCTGCCAGGAGAAGA (double mismatch, C->T,T->C)
Target-3: AGAGTATGTGTGAATCTTAT,TCAGTATGTGTGAATCTTAT (double mismatch, A->T,G->C)