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. 2011 Nov 2;40(4):1666–1683. doi: 10.1093/nar/gkr863

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© The Author(s) 2011. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 5. — Genomic SVA_E de novo insertions display hallmarks of L1-mediated retrotransposition. Both pre- and post-integration sites are presented. Insertions 1–8 and 9–11 are derived from SVA_E reporter elements encoded by pAD3/SVA_E and pAD4/SVA_E, respectively. Nucleotide positions at the 5′-end of each SVA insertion refer to the reference sequence of SVA H19_27 [(21); Supplementary Figure S1]. Marked full-length insertions cover ~3.3 kb (pAD3/SVA_E-derived) and ~2.8 kb (pAD4/SVA_E-derived), respectively. Identified 5′-truncated insertions comprise 1580 bp (insertion 6) and 1620 bp (insertion 9), respectively. The L1EN cleavage site on the bottom strand is indicated in blue. Extra deoxyguanylates at the 5′-ends of de novo insertions are indicated in green. CMV_P-derived sequences are highlighted in yellow. Nucleotides representing patches of microcomplementarity are underlined. Black bars, Alu TSD sequences. Red lettering, SVA TSD sequences; neo, neomycin-phosphotransferase gene.