Supplementary Figure 3: Enrichment in 3’UTR motifs in transcripts deregulated in the Areg-/- mice.
From: Somatic cells regulate maternal mRNA translation and developmental competence of mouse oocytes
Unique 3’UTR DNA sequence for all differentially translated transcripts (Supplemental Tables 1 and 2) was downloaded from the mm9 assembly of the UCSC Genome Browser. The sequences were scanned for motifs with MEME-ChIP (ref. 47), searching only the given strand for any number of repetitions and allowing for motifs of length between 6 and 30 bases. Only motifs with evalues less than 0.01 are reported. For each motif discovered by MEME-ChIP, fasta sequences were downloaded and converted to RNA sequence, and the analogous RNA motif sequence logos were generated using WebLogo 3 48. The motif reported in the top panel corresponds to the motif recognized by the Drosophila Hrb87F or Hrb98DE protein. These proteins are homologous to the mammalian A/B-type HnRNP proteins involved in transport and stabilization of mRNAs.
