Pbx-hox motifs in CNEs strongly resemble verified PBX-HOX binding-sites. Position frequency logos generated from Gnathostome alignments (based on 712 conserved human TGATNNAT motifs in 4529 CNE alignments), Human CNEs (generated from the CONDOR CNE set using Cis-finder ) and from previous studies  (Literature). The relative base frequencies at positions 5 and 6, and 9 and 10, in CNEs, are in good agreement with known functional Pbx-Hox binding sites, supporting a strong KR consensus.
Parker et al. BMC Genomics 2011 12:637 doi:10.1186/1471-2164-12-637