Table 1.

Zic-binding sites present in chordates’ genes and in the upstream sequences of the Sp5, Wnt3 and Zic4 Hydra genes. CI: Ciona intestinalis (ascidian), HR: Halocynthia roretzi (ascidian), HS: Homo sapiens, HV: Hydra vulgaris, MM: mus musculus.

Species	Target Genes		Zic TF	ZIC-Binding Site Sequence	References
MM	Gli—consensus		Zic1–5	TGGGTGGTC	[46,47]
MM	L amin A/C		Zic1	CCACCCCCT	[48]
MM	M ath1		Zic1	GCTCCCCGGGGAGCT	[49]
MM	A poE	_A	Zic1/2	GGACTGTGGGGGGTGGTCAA	[50]
		_B		AAACTGTGGGGGGTGGTCAA
		_C		GGACTGTGGGGGGTGAAAAA
		_D		CTATCCCTGGGGGAGGGGGC
HS	D1A		ZIC2	CCCCCAGGGCA	[51]
MM	CamK II		Zic2	GTGTGGGC	[52]
MM	Pax3		Zic2	CTGCTGGGG	[53]
MM	Oct4		Zic2	2550~−2430	[54]
HS	a-ACTIN		ZIC3	GGAGGG	[55]
MM	Nanog-C, Nanog-T		Zic3	CC(C/T)GCTGGG CCTGCTGGG	[56]
HS	E-CADHERIN (CDH1)		ZIC5	−283~−71	[57]
CI	B rachyury		ZicL	CCAGCTGTG	[58]
CI	E(SPL)/HAIRY-B		Macho1	5′-GCCCCCCGCTG-3′	[59]
HR	synthetic		Macho1	GACCCCCCA	[60]
HV	Sp5	−672	Zic	AACCTGGCCTGC	[33,34]
		−383		GGCAGGTGCCGGC	this work (Figure 7 and Figure S2)
HV	Wnt3	−1781	Zic	GCCCGCGCTCTCC	this work (Figure 7 and Figure S20A)
		−1177		GACAGCGGGTG
HV	Zic4	−1863	Zic4	ATCGCCCCCTCTCGCT	[34]
		−1825		ACGGGCATTGGCGTGA	this work (Figure 7 and Figure S20B)
		−1736		GAGGTGACCCATGCTG
		−1291		AGGAAAGGGGTGCTACA
		−107 +77		TGCTCCCGT TACCCCGCTA