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. Author manuscript; available in PMC: 2020 Jun 1.
Published in final edited form as: Gene Expr Patterns. 2019 Mar 30;32:53–66. doi: 10.1016/j.gep.2019.03.001

Fig. 7.

Fig. 7.

Phylogenetic comparison of lcp1 first exon size and discovery of several evolutionarily-conserved regions (ECRs).

A. Comparative size of the lcp1 first intron in selected vertebrate genomes. 5’UT1 = purple; protein-coding regions = green.

B. mVISTA alignment of the lcp1 first intron in the amazon molly, stickleback, and pla-tyfish reveals 4 evolutionarily conserved regions (> 50% similarity), labeled ECR1 through ECR4.

C. Spliced ESTs show an intronic ‘foothill’ (orange arrow) adjacent to the canonical exon boundary, indicating transcriptional activity. These foothill ESTs are stage-specific to shield or segmentation stage embryos (see Table 3).

D. A CAGE-seq cluster active between sphere and somite stages suggests a devel-opmentally-regulated alternative transcriptional start site (TSS) approximately 500 bp upstream of the canonical exon boundary.

E&F. Activating histone modifications (H3K4me3 and H3K27ac) overlap the ESTs and the CAGE-seq cluster. These ontogenetic marks appear in only a narrow stage-specific window, from dome through shield. 5’ UTR = 5’ untranslated region; ECR = evolutionarily conserved region; lcp1 = L-plastin.