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. 2014 Dec 29;43(2):817–835. doi: 10.1093/nar/gku1361

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© The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 4. — Base-resolution expression profiles for five representative gene-hosted, sense-oriented Alus. Panels A–C refer to Alus hosted within introns of RefSeq genes, panel D to a 3′UTR-hosted Alu, panel E to an Alu hosted within a a lincRNA gene intron. Shown are the IGV visualizations of RNA-seq stranded expression profiles (in bigwig format) around Alu loci in the cell lines indicated either on the left (A–D) or on the right (E) of each panel. r1 and r2 tracks refer to the two independent replicates found in ENCODE data. The orientation and chromosomal coordinates of each Alu, as well as the host RefSeq or lincRNA genes, are indicated in each panel. The dark red bars in panels B and F identify regions associated to the indicated Pol III transcription component (Bdp1, Tf3c1 or Rpc155) in either K562 or HeLa cells as derived from ENCODE ChIP-seq data.