Description

This 296bp sequence, located in the upstream region of KH.S345.4, drives no reporter gene expression in notochord. It contains 3 E-box, 3 Sp1/Klf, 1 Myb#2 and 1 Brachyury putative binding sites. Compared to the active WT enhancer, it lacks one Sp1/Klf binding site.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.S345:68522-68829|KH.S345.4 by deletion

Regulated gene(s)

KH2012:KH.S345.4 (KH.S345.4)

Construct(s) made to test this region

CONS00001358: p.Cirobu.REG.KH2012.S345:68541-68828>LacZ

Overview of functional TF binding sites in this region

68,54168,829

	Motif Name	Binding Factor(s)	Sequence	Position in Region	Comment
1	bHLH	n/a	caagtg	[68,545 / 68,551]	This the first of the 3 E-box binding sites located in the notochord-active enhancer of KH.S345.4.
2	ZnF_(C2H2)	n/a	ccacc	[68,600 / 68,605]	This is one of the 4 Sp1/Klf binding sites located in the notochord-active enhancer of KH.S345.4.
3	bHLH	n/a	caaatg	[68,617 / 68,623]	This is one of the 3 E-box binding sites located in the notochord-active enhancer of KH.S345.4.
4	ZnF_(C2H2)	n/a	ggtgg	[68,702 / 68,707]	This is one of the 4 Sp1/Klf binding sites located in the notochord-active enhancer of KH.S345.4.
5	T-Box	n/a	tggcac	[68,742 / 68,748]	This Brachyury binding site is located in the notochord-active enhancer of KH.S345.4. Its mutation does not affect enhancer activity in the notochord.
6	Helix Turn Helix / Tryptophane clusters	n/a	attgaa	[68,786 / 68,792]	This Myb#2 binding site is located in the notochord-active enhancer of KH.S345.4. Its deletion does not affect enhancer activity in the notochord.
7	ZnF_(C2H2)	n/a	ggtgg	[68,808 / 68,813]	This is one of the 4 Sp1/Klf binding sites is located in the notochord-active enhancer of KH.S345.4. Its deletion does not affect enhancer activity in the notochord.

Sequence

Aniseed Coordinates: [68,541 / 68,829] on scaffold KhS345

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1.c and TableS5 of Jose-Edwards et al. 2015.

Reference(s)

José-Edwards et al. (2015). Brachyury, Foxa2 and the cis-Regulatory Origins of the Notochord. PLoS Genet. 11(12):e1005730