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. 2018 Aug;28(8):1228–1242. doi: 10.1101/gr.229401.117

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© 2018 Song et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 1. — Alu structure and Alu/Alu-mediated rearrangement (AAMR) event formation. (A) A consensus Alu element is depicted, with both left and right 7SL monomers indicated. A Box, B Box, and A′ Box are internal Pol III promoter elements; the linker is an A-rich sequence; and the element ends in a poly(A) tail. (B) A diagram of an AAMR event is shown: A genomic rearrangement is mediated by a substrate pair of Alu elements followed by the formation of a relatively complete chimeric Alu. Block arrows represent Alu elements on the + (forward arrow) and − (reverse arrow) strand. The 5′ CNV-Alu is colored maroon, and the 3′ CNV-Alu is pink. Ctrl-Alu elements not involved in AAMR are in blue. The microhomology generated at the breakpoint junction after the AAMR event is shown in green.