Sequence conservation of the
lncRNA in primates. (a) Partial sequence alignment of the EVADR MER48 and flanking sequence in 13 primates showing lack of MER48 LTR in NWMs and prosimians. The major experimentally determined transcriptional start site (TSS) is indicated by a bent arrow, while the predicted TATA box is indicated by a line. Due to space constraints, some sequence has been removed and is indicated by NNN and curly brackets. (b) Sequence identity of the EVADR MER48 LTR and EVADR in 13 primate species determined with SIAS (Methods) on ClustalW aligned sequences. The first and second introns are indicated by an i1 and i2, respectively. The tree was generated using the UCSC genome tool phlyoGif [45,46]. The black dot indicates a burst of MER48 insertion as determined by the GEnome-wide Browser for RETroelement (GEBRET) webtool . For GEBRET output and complete sequence alignments see Figure S9 in Additional file 1 and ClustalW alignments in Additional file 3, respectively.