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. Author manuscript; available in PMC: 2014 Jun 1.
Published in final edited form as: Funct Integr Genomics. 2013 Feb 19;13(2):207–216. doi: 10.1007/s10142-013-0313-8

Figure 3.

Figure 3

Analysis of TE-derived miRNA hairpin-like EST, AU055776. (a) hairpin structure for AU055776 predicted by the MFOLD program. Color-coded horizontal lines show the positions and abundances of MPSS sRNA signatures. TPQ, transcript per quarter million. (b) RNA blot for the most abundant sRNA from AU055776 inferred from MPSS data. 5S rRNA was used as loading control. A 21 nt DNA oligonucleotide marker (left lane) was run to estimate sRNA size. (c) Sequence alignment of AU055776 to cognate miRNA hairpins from miRBase. The ClustalW program was used for alignment. The reverse complement strands of AU055776 and miR1884 precursors are shown. The consensus nucleotides (> 90% identity) are indicated by boxes. Locations of annotated miRNAs are underlined for miR806a, miR812a, miR818e and miR1884a. For miR1884b, 21-nt variant found in this study is underlined. For AU055776, the probe sequence is underlined.