We used our previously published isASO-ID protocol to identify binders for two different adenosine deaminases acting on RNA- (ADAR-) recruiting antisense oligonucleotides (ONs). The ONs differed in their phosphorothioate content and their RNA editing potency and efficiency through the recruitment of endogenous ADAR. We aimed to get a first insight into the protein interactions of this new ON class since ON toxicity is largely defined by the protein interactions. The results will help to understand class-specific mechanisms for ON toxicity and thus to design safer ON drugs.