microRNA (miRNA) represses protein-coding gene via seed pairing to 3′ UTRs of mRNA at the post-transcriptional and translational level. Although working models of miRNA-mediated gene silencing have been successfully established using miRNA transfections and knockouts, the regulatory interaction between miRNA and long non-coding RNA (lncRNA) remain unknown. In particular, how mRNA-resembling lncRNAs with 5’ cap, 3’ poly(A)-tail, or coding features are regulated by miRNA is yet to be examined. We therefore investigated the functional interaction between miRNAs and lncRNAs with/without those features in miRNA-transfected, early zebrafish embryos. We observed that the lncRNAs verified to contain 5’ cap, 3’ poly(A)-tail, and canonical miRNA target sites were observed to be repressed in the level of both RNA and ribosome-protected fragment, while those with miRNA target sites and without 5’ cap and 3; poly(A)-tail were not robustly repressed by miRNA introduction, suggesting a role as a miRNA-decoy.