Understanding the Output: Understanding FEELnc Tool Results and lncRNA Functional Analysis

[numanmian]

Hi there, I’m a molecular biologist and I’m a bit confused about something we did. We used the FEELnc tool to predict lncRNA, and in the output files, we see the lncRNA MSTRG along with some genes named transcript: AT2G17695.2. What does this mean? In lncRNA functional analysis, we look for genes that are expressed similarly to the lncRNA we’re considering. If we find co-expressed genes, we perform a Gene Ontology analysis. But I’m not sure if that’s what we’re doing here. Can you help me understand?