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. 2023 Mar;29(3):330–345. doi: 10.1261/rna.079408.122

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© 2023 Asencio et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article, published in RNA, is available undera Creative Commons License (Attribution 4.0 International), as described at http://creativecommons.org/licenses/by/4.0/.

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FIGURE 2. — CLIP_2C identifies several tRNAs as specific GAPDH biding partners. (A) Schematic representation of CLIP_2C workflow. (B) Read coverage along YDL040C, tK(UUU)D, and tQ(UUG)L genes after CLIP_2C of Pab1-TAP and Tdh3-Protein A. An untagged WT strain was used as negative control. Scale of the y-axis for input and IPs samples were normalized to the highest value. Red boxes highlight statistically significant RNA target regions, the 3′UTR region of YDL040C for Pab1-TAP and tK(UUU)D for Tdh3. The binding of Tdh3 to tK(UUU)D was specific as alternative tRNA genes, like tQ(UUG)L, were not statistically enriched after CLIP_2C. (C) Volcano plot displaying the log₂ fold change in normalized read counts versus −log₁₀ P-value after CLIP_2C of Tdh3-Protein A and Pab1-TAP. Statistical significance was defined as log₂FC ≥ 1 and P-value ≤ 0.05.