Figure 4.

VM-IAPs Can Interfere with Tissue-Specific Transcriptional Events

(A) Pie charts of percentage of VM-IAPs overlapping de novo assembled transcripts and their distribution according to IAP-LTR subtype.

(B) VM-IAP-associated ectopic transcription of Slc15a2, Eps8l1, and 2610035D17Rik. Intragenic VM-IAP_Slc15a2 drives expression of downstream Slc15a2 exons. Intergenic VM-IAP_Eps8l1 drives ectopic expression of Eps8l1. Intragenic VM-IAP_{2610035D17Rik} provides an alternative promoter for lincRNA 2610035D17Rik. VM-IAPs are shown in blue and de novo assembled transcripts in purple. Transcripts extracted from UCSC are in black, and qPCR primers are depicted as arrows and color coded to correspond with (C), (D), and (E).

(C) Expression of Slc15a2 downstream exons 9–10 and 19–20 (spleen) is inversely correlated with VM-IAP_Slc15a2 methylation (two-tailed Pearson). Upstream exons are not expressed. Expression was quantified by qPCR and shown relative to housekeeping gene β-actin. Each dot represents a different individual.

(D) Expression of Eps8l1 exons 1–2 and 4–5 (brain) is inversely correlated with VM-IAP_Eps8l1 methylation (two-tailed Pearson).

(E) Expression of the VM-IAP_{2610035D17Rik}-driven transcript (spleen) is inversely correlated with VM-IAP_{2610035D17Rik} methylation (two-tailed Pearson).

See also Figure S4.