Extended Data Fig. 8: Conservation of cis-regulatory elements from zebrafish to other vertebrates.
From: A map of cis-regulatory elements and 3D genome structures in zebrafish
a, Percentage of zebrafish enhancers whose sequences were conserved in human (the number of each bar, from left to right, 13,307, 7,018, 11,940, 7,499, 14,783, 14,272, 8,995, 13,777, 10,757, 15,505, 1,734, 4,011, 5,247). b, c, Similar to Fig. 4a. Percentage of zebrafish exons and cis-regulatory elements that have orthologous sequences in mouse and other fish species. Total number of each bar, from left to right: 1,000, 25,593, 58,065, 1,000. For exons and random, we randomly sample 1000 elements and computed their conservation percentage. The simulations were performed 20 times and the average percentage was presented. d, Another example of ultra-conserved noncoding element (UCNE). This element (FOXP1_Finn_1) is predicted to be a muscle enhancer in zebrafish, mouse, and human. Grey vertical bar marks the ultra-conserved region. Red vertical bar is the enhancer sequence in the human genome that was validated as a limb enhancer by transgenic mouse reporter assay in the VISTA Enhancer Browser (#hs956).
