Gap genes * buttonhead * cap'n'collar * caudal * collier * crocodile * empty spiracles * giant * hunchback * huckebein * Krüppel * knirps * orthodenticle * sloppy paired * tailless

Pair rule genes * even-skipped * fushi tarazu * hairy * odd-paired * odd skipped * paired * runt * sloppy paired * Tenascin major

Unclassified genes involved in regulation of gap and pair rule genes * Chip * C-terminal binding protein * eyelid * ftz-F1 * dead ringer * domeless * hopscotch * lilliputian * marelle (also known as STAT) * outstretched * Rpd3 * shuttle craft * Sir2 * Sox box protein 70D (also known as Dichaete) * squid