ApiAP2 motifs are conserved in var gene promoters.
Matches to ApiAP2 motifs were identified using position weight matrices for each motif. Searches were performed on 3 kb upstream of the ATG start codon or until the next upstream gene was encountered (shorter lines). The presence and position of motifs are conserved in the promoters of different types of var genes. The previously described SPE1 and SPE2 motifs in upsB var genes were found as well as occurrences of the PF11_0442 motif in all types of var genes.