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CIS-REGULATION

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  1. Region 'REG00001207'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C4.4315574-4315776

Short name

n/a

Region ID

REG00001207

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Naoyuki Ohta (2017-06-01)

Annotator

Marie Fagotto (2017-06-01)

Curator

Delphine Dauga (2017-09-04)

View position in WashU

Description

Sequence from 4315574 to 4315776 bp containing two putative Smad binding element and one binding element for Smad4 (a co-factor of regulatory Smad proteins) within the 100-bp upstream region of the the a-element of Otx.

Hierarchy of Regulatory Regions

Modification of Otx -1723/161 by deletion

Regulated gene(s)

KH2012:KH.C4.84 (CRX; OTX1; OTX2)

Construct(s) made to test this region

CONS00001200: p.Cirobu.REG.KH2012.C4.4315574-4315776>LacZ

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

4,315,5744,315,776

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 MAD n/a CGGC [4,315,576 / 4,315,580] Mutation of this sites will have an impact on the expression of Otx.
2 MAD n/a GTCT [4,315,585 / 4,315,589] Mutation of this site willhave an effect on the expression of Otx.
3 MAD n/a CGGCG [4,315,606 / 4,315,611] Mutation of this site will have an impact on Otx expression.

Sequence

Aniseed Coordinates: [4,315,574 / 4,315,776] on scaffold KhC4

Sequence from 4315574 to 4315776 bp containing two putative Smad binding element and one binding element for Smad4 (a co-factor of regulatory Smad proteins) within the 100-bp upstream region of the the a-element of Otx.

Show sequence

Length: 203


CGCGGCAGGTCGTCTTTTACCGAACATGTTTTCGGCGTGTTATCATAGCGAAGCACGCTG
CGTTTCCTTCACCTTACGACGTGTGATAGTGCGTGATAACTCGTATCCTTTCGCACTGCG
TTCCTATCCGTACTTTGGATCTGAAGCTCGTTATCTCTAACGGAAGTTTTCGAAAAGGAA
ATTGTTCAATATCTAAGATAGGA

Reference(s)

Ohta et al. (2013). Multiple signaling pathways coordinate to induce a threshold response in a chordate embryo. PLoS Genet. 9(10):e1003818

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