Genomic competition for noise reduction shaped evolutionary landscape of mir-4673

摘要

Structural analysis shows improved thermodynamic stability of the RNA hairpin in the primate lineage culminating in structural maturation of the miR-4673 hairpin in . Nucleosome-favouring dinucleotide usage map of human notch-1 intron 4. Transmission electron micrograph of a nucleosome formed by NPS (left). Gel retardation (middle) and restriction enzyme digestion assays (right) provided further confirmation for nucleosome formation by NPS . The temporal profile of enhancer-RNAs (eRNAs) that originate from notch-1 intron-4 (full blots are provided in Supplementary Fig. ). Vertical lines show the location of eRNAs with reference to the dinucleotide usage map. In order to access the eRNA profile, cells were synchronised at G0 and released into G1 by application of a single pulse of FGF-2. Note the temporal stability of 3′-eRNA from a region that corresponds to NPS (see Supplementary Fig. ). This region is positioned at the 3′-terminus of a stable RNA palindrome formed by two Alu elements. Histogram shows cumulative distribution of TCF3/4 and TFAP2A/B/C -motifs in the intron 4 of human notch-1. At the bottom, Levenshtein distance (L.E.D) as a measure of intronic change is aligned to the enhancer map. Sequences that belong to AluJb and AluYa1 insertions in all Simians are in grey. Species-specific transpositional events are marked in LED heat maps.