Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression

Table 1 CNEs associated to target genes that show changes in expression between zebrafish and mice

CNE		Mt	Zt	Mg	Zg	Trans & Gene	NoTrans & Gene
Hs259	Limbs	+	-	+	-	Yes
Hs259	Spinal cord	-	+	+	+
Hs327	Hindbrain	+	+	+	+
	Forebrain	-	+	+	+
	Spinal cord	+	+	+	-		Yes
	Midbrain	-	+	+	+
Hs382	Forebrain	+	+	+	+
	Somites	+	+	+	+
	Spinal cord	+	-	+	+
	DRG	+	-	+	-	Yes
	Eye	-	+	+	+
	Notochord	-	+	+	+
	Hindbrain	+	-	+	+
	Midbrain	+	-	+	+
Hs422	Forebrain	+	+	+	+
	Spinal cord	-	+	-	-
	Nose	+	-	+	-	Yes
	Hindbrain	-	+	-	-
Hs595	Forebrain	+	+	+	+
	Midbrain	+	-	+	+
	Nose	+	-	+	-	Yes
Hs609	Forebrain	+	-	+	+
Hs609	Limbs	+	-	+	-	Yes
Hs671	Forebrain	+	+	+	+
	Eye	-	+	+	+
	Hindbrain	-	+	+	+
	DRG	-	+	+	-
Hs672	Forebrain	+	-	+	+
	Midbrain	+	+	+	+
	Spinal cord	+	-	+	-	Yes
Hs687	Forebrain	+	+	+	+
Hs687	Spinal cord	+	-	+	-	Yes
Hs774	Hindbrain	+	+	+	+
	Limbs	+	+	+	-		Yes
	Forebrain	-	+	+	+
	Eye	-	+	-	+	Yes
Hs1114	Midbrain	+	+	+	+
	Hindbrain	+	+	-	+
	Spinal cord	+	+	+	+

Presence (+) or absence (−) of expression for the transgene in mice (Mt), transgene in zebrafish (Zt), mice target gene (Mg), and zebrafish target gene (Zg). “Trans & Gene” refers to changes in the expression of target genes consistent with trans- changes and “No Trans & Gene” indicates changes in the expression of target genes coincident with no trans events. DRG - Dorsal root ganglia.