Aniseed - Cis-regulation

Cis-regulatory Region

Name

Cirobu.REG.KH2012.S610:12703-12901|Kelch-related protein

Short name

n/a

Region ID

REG00001314

Status

Curated

Origin

natural region from C. robusta formely Ciona int. type A

Type of Activity

regulatory_region
(enhancer)

Author

Diana S. José-Edwards (2018-05-08)

Annotator

Marion Gueroult-Bellone (2018-05-08)

Curator

Marion Gueroult-Bellone (2018-05-08)

View position in WashU

Description

Hierarchy of Regulatory Regions

Cirobu.REG.KH2012.S610:12703-12901|Kelch-related protein REG00001314 [ regulatory_region (enhancer) ]

Regulated gene(s)

KH2012:KH.S610.5 (KBTBD8; KLHL17; KLHL41)

Construct(s) made to test this region

CONS00001334: p.Cirobu.REG.KH2012.S610:12703-12901>LacZ

Show in situ data

Overview of functional TF binding sites in this region

12,70312,901

	Motif Name	Binding Factor(s)	Sequence	Position in Region	Comment
1	T-Box	n/a	ttgcac	[12,712 / 12,718]	This is the first of the 3 Brachyury binding sites located in the notochord enhancer of KH.S610.5. Its mutation inhibits enhancer activity in the notochord.
2	ZnF_(C2H2)	n/a	ggtgg	[12,835 / 12,840]	This Sp1/Klf binding site is located in the notochord enhancer of KH.S610.5.
3	T-Box	n/a	taacac	[12,860 / 12,866]	This is the second of the 3 Brachyury binding sites located in the notochord enhancer of KH.S610.5.
4	T-Box	n/a	gtgcca	[12,883 / 12,889]	This is the 3rd of the 3 Brachyury binding sites located in the notochord enhancer of KH.S610.5.

Sequence

Aniseed Coordinates: [12,703 / 12,901] on scaffold KhS610

This 198bp sequence, located in the downstream region of KH.S610.5, drives reporter gene activity in notochord. It contains 1 Sp1/Klf and 3 Brachyury putative binding sites. This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS3.b and TableS5 of Jose-Edwards et al. 2015.

Show sequence

Length: 199

acaaacatcttgcacctaagtgctgaagaactcccctctttgtcaatttcaagacctgaa
aacattttcgtcatttatagaaagtaaaaagctacaacatgagagtgaataaatgaaact
tacttatcctcgggtggcgagaaaaccctagtcgttataacacgggtgttcatacatctc
gtgccaggttataattacg

Reference(s)

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