CIRCprimerXL: Convenient and High-Throughput PCR Primer Design for Circular RNA Quantification.

ABSTRACT: Circular RNA (circRNA) is a class of endogenous non-coding RNA characterized by a back-splice junction (BSJ). In general, large-scale circRNA BSJ detection is performed based on RNA sequencing data, followed by the selection and validation of circRNAs of interest using RT-qPCR with circRNA-specific PCR primers. Such a primer pair is convergent and functional on the circRNA template but divergent and non-functional on the linear host gene. Although a few circRNA primer design pipelines have been published, none of them offer large-scale, easy-to-use circRNA primer design. Other limitations are that these tools generally do not take into account assay specificity, secondary structures, and SNPs in the primer annealing regions. Furthermore, these tools are limited to circRNA primer design for

SUBMITTER: Vromman M 

PROVIDER: S-EPMC9580850 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature