Description

This 94bp sequence, located in the downstream region of KH.C5.399, drives no reporter gene expression in notochord. It contains 1 E-box, 1 Fox, 1 Myb#2 and 1 Myb#3 putative binding sites. Compared to the notochord-active larger enhancer, it lacks 1 Myb#1 and # Myb#2 binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C5:4472042-4472163|Rfx1/2/3 by deletion

Regulated gene(s)

KH2012:KH.C5.399 (RFX1; RFX2; RFX3)

Construct(s) made to test this region

CONS00001371: p.Cirobu.REG.KH2012.C5:4472070-4472163>LacZ

Overview of functional TF binding sites in this region

4,472,0704,472,163

	Motif Name	Binding Factor(s)	Sequence	Position in Region	Comment
1	bHLH	n/a	caaatg	[4,472,076 / 4,472,082]	This is one of the 2 E-box binding sites located in the notochord-active enhancer of KH.C5.399.
2	Fox	n/a	tgtttgt	[4,472,101 / 4,472,108]	This is one of the 2 Fox binding sites located in the notochord-active enhancer of KH.C5.399.
3	Helix Turn Helix / Tryptophane clusters	n/a	ttcaat	[4,472,129 / 4,472,135]	This is one of the 3 Myb#2 binding sites located in the notochord-active enhancer of KH.C5.399.
4	Helix Turn Helix / Tryptophane clusters	n/a	ccgttg	[4,472,145 / 4,472,151]	This Myb#3 binding site is located in the notochord-active enhancer of KH.C5.399. Its mutation does not affect the enhancer activity in the notochord.

Sequence

Aniseed Coordinates: [4,472,070 / 4,472,163] on scaffold KhC5

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1.d 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