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CIS-REGULATION

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  1. Region 'REG00001339' > 
  2. Region 'REG00001287' > 
  3. Clone 'cien110718' > 
  4. Clone 'cien159918' > 
  5. Region 'REG00001334'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C10:2816564-2816650_Ebox1mut|Ubp4,Ubp8,Ubp11

Short name

n/a

Region ID

REG00001334

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

This 87bp sequence, located in the downstream region of KH.C10.320, drives reporter gene expression in tail muscle and central nervous system but not in notochord. It contains 1 E-box and 1 Brachyury putative binding sites. Compared to the active WT enhancer, it lacks the first E-box binding site.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C10:2816564-2816650|Ubp4,Ubp8,Ubp11 by deletion

Regulated gene(s)

KH2012:KH.C10.320 (USP11; USP32; USP4)

Construct(s) made to test this region

CONS00001354: p.Cirobu.REG.KH2012.C10:2816564-2816650_Ebox1mut>LacZ

Show in situ data
Overview of functional TF binding sites in this region

2,816,5642,816,650

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 T-Box n/a gtgtcta [2,816,571 / 2,816,578] This Brachyury binding site is located in the notochord enhancer of C10.320.
2 bHLH n/a cagttg [2,816,618 / 2,816,624] This is one of the 2 E-box binding sites located in the notochord enhancer of C10.320.

Sequence

Aniseed Coordinates: [2,816,564 / 2,816,650] on scaffold KhC10

The first E-box binding site is mutated. CAACTG replaced by CATACG. This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1.b and TableS5 of Jose-Edwards et al. 2015.

Show sequence

Length: 87


tcgccgtgtgtctagtcaccacagtgctgtttagttcaagtaagtttaagtaagcagttg
acgtttaagtaagcgtatgacgagcta

Reference(s)

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

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