Untranslated regions (UTRs) of the transcriptome are key regulators of post-transcriptional gene expression. Multiple genome-wide association studies have linked 3’ UTR genetic variants to disease, and studying their impact in vitro is fundamental in the development of future therapies. Monitoring their influence on protein expression levels and their modulation by non-coding RNAs and RNA-binding proteins involves the use of luminescence reporters. These reporters are unable to support spatiotemporal studies and utilise costly reagents. Here, we have developed and benchmarked a new reporter system harnessing modern fluorescent proteins towards real-time high-throughput quantification of 3’ UTR function. We found that the new vectors provide the same sensitivity as their luciferase-based counterparts, while also uniquely supporting plate reader experiments, in addition to single-cell imaging. These results demonstrate multifunctional use cases with the potential to be widely adopted by the research community.