Fig. 1: Nonlinear sequence similarity between human and gecko embryogenesis lncRNAs.
From: Functional evolutionary convergence of long noncoding RNAs involved in embryonic development
a k = 3 to k = 6 k-mer content analysis of MEG3 and EVX1AS lncRNAs using SEEKR tool. Candidate lncRNAs were compared against the Madagascar gecko genome. The boxplot represents all gecko genes, and the dots highlight the position of the selected candidate genes as well as its correlation values (Pearson, SEEKR) and its percentile (%ile). Blue and red dots correspond to the MEG3 and EVX1AS genes respectively. b Secondary structure similarity study using CROSSALIGN tool. Optimal matching region by OBE-DTW algorithm (left) and overall structural similarity by Standard-DTW (right). Structural profiles are obtained with CROSS Global Score for the two RNAs (score >0 means a double-stranded nucleotide; <0 single-stranded). c Linear conservation analysis of MEG3 (top) and EVX1AS (bottom) performed using mVISTA. Human sequence is shown on the x axis and percentage similarity to the corresponding gecko sequence on the y axis. The graphical plot is based on sliding-window analysis of the underlying genomic alignment. A 100-bp sliding window is at 25-bp nucleotide increment is used.
