2.6 Non-coding RNA identification
Transfer RNAs (tRNAs) were identified using the tRNAscan-SE (version
1.3.1, with default parameters for eukaryotes) program (Chan & Lowe,
2019). RNAmmer (version 1.2) with
parameter “-s euk -m tsu, ssu, lsu” was used to identify 5S/ 8S, 16S/
18S and 23S/ 28S rRNA (Karin et al., 2007). Ribosomal RNAs (rRNAs),
microRNAs (miRNAs) and small nuclear RNAs (snRNAs) were identified based
on the Rfam database (version 12.2) using BLASTN (E-value
≤1×10−5) (Kalvari
et al., 2017).