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CIS-REGULATION

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  1. Region 'REG00000697'

Cis-regulatory Region

Name

Ci-Pitx -2751/-2696 repeated x2 Second Otx site mutated

Short name

n/a

Region ID

REG00000697

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Maximilian Haeussler (2010-06-04)

Annotator

Clara Degos (2010-07-22)

Curator

Delphine Dauga (2011-08-10)

View position in WashU

Description

Minimal enhancer upstream of Pitx gene from -2751 to -2696, called D1(ab)(ab-Omut) in the paper. The region named D1ab in the paper was repeat 2 times and the Otx site in the repeated region was mutated. This region can t drive expression in the neurohypophysis primordium.

KH transcript model was taken as reference for the region s coordinates.

Hierarchy of Regulatory Regions

Modification of Ci-Pitx -2751/-2696 repeated x2 by deletion

Regulated gene(s)

KH2012:KH.L153.79 (PITX1; PITX2; PITX3)

Construct(s) made to test this region

CONS00000666: pCi-Pitx -2751/-2696 repeated x2 Second Otx site mutated:CES2:LacZ

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

197,501197,555

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Paired n/a CGCGACGA [-2,748 / -2,741]
2 Homeobox n/a GATTA [-2,732 / -2,728]
3 Fox n/a TAATATTTCTTT [-2,724 / -2,713]
4 MAD n/a GCCG [-2,705 / -2,702]
5 Paired n/a CGCGACGA [-2,693 / -2,686]
6 Fox n/a TAATATTTCTTT [-2,669 / -2,658]
7 MAD n/a GCCG [-2,650 / -2,647]

Sequence

Aniseed Coordinates: [197,501 / 197,555] on scaffold KhL153

The second Otx site was mutated (GATTA=>GATGA).
The sequence is based on the first codon on the KH transcript.

Show sequence

Length: 110


AAACGCGACGACCTCCACGGATTAAGGTAATATTTCTTTTTATGTTGCCGCCCAGAAACG
CGACGACCTCCACGGATGAAGGTAATATTTCTTTTTATGTTGCCGCCCAG

Reference(s)

Haeussler et al. (2010). A cis-regulatory signature for chordate anterior neuroectodermal genes. PLoS Genet. 6(4):e1000912

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