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. 2020 Nov;26(11):1680–1703. doi: 10.1261/rna.077362.120

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© 2020 Wolfe et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 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 2. — SEQRS analysis of Human PUM1 and PUM2 PUM-HDs reveals preference for the canonical PUM recognition element. (A, top) Position weight matrices representing 8-mer sequence preferences for purified Human PUM1 PUM-HD, as determined for each SEQRS round. (Bottom) 8-mer enrichment, as measured by log₂(Enrichment SEQRS round/Enrichment no protein) (see Materials and Methods for details) for each 8-mer as binned by Hamming distance from the canonical UGUAAAUA PUM recognition element. Enrichment scores for 8-mers within two mismatches are filled in red. (B) Same as in A, but for Human PUM2 PUM-HD. (C) Closer view of Human PUM2 PUM-HD PWMs. (D) Same as in A, but for Drosophila Pum PUM-HD. (E) Correlation of 8-mer enrichment between Human PUM1 and Human PUM2 PUM-HDs. Enrichment for all possible 8-mers are displayed in a two-dimensional histogram. The dashed black line represents one-to-one correspondence. All 8-mers within one mismatch to the UGUAAAUA sequence are plotted as red points with the color specifying the position within the motif where the mismatch occurs. The red line is a linear fit using only the UGUAAAUA 8-mer and all 8-mers within one mismatch.