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CIS-REGULATION

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  1. Region 'REG00000700'

Cis-regulatory Region

Name

Ci-Pitx -2751/-2696 repeated x2/25bp spacer

Short name

n/a

Region ID

REG00000700

Status

Curated

Origin

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

Type of Activity

regulatory_region
(complex_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)-25-(ab) in the paper. The region named D1ab in the paper was repeat once, and between the two fragments there is a spacer region of 25bp. 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 insertion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000669: pCi-Pitx -2751/-2696 repeated x2/25bp spacer: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 [-2,668 / -2,661]
6 Homeobox n/a GATTA [-2,652 / -2,648]
7 Fox n/a TAATATTTCTTT [-2,644 / -2,633]
8 MAD n/a GCCG [-2,625 / -2,622]

Sequence

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

The spacer region added was symbolized by "N".
The sequence is based on the first codon on the KH transcript.

Show sequence

Length: 135


AAACGCGACGACCTCCACGGATTAAGGTAATATTTCTTTTTATGTTGCCGCCCAGNNNNN
NNNNNNNNNNNNNNNNNNNNAAACGCGACGACCTCCACGGATTAAGGTAATATTTCTTTT
TATGTTGCCGCCCAG

Reference(s)

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

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