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CIS-REGULATION

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  1. Region 'REG00000897' > 
  2. Clone 'AHC0AAA201YO05' > 
  3. Region 'REG00000684'

Cis-regulatory Region

Name

Ci-Pitx -2751/-2543 delta -2693/-2646 delta -2606/-2588

Short name

n/a

Region ID

REG00000684

Status

Curated

Origin

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

Type of Activity

regulatory_region
(complex_region)

Author

Maximilian Haeussler (2010-06-02)

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 -2543, called D1abde in the paper. The fragment "c" in the paper was absent, there is also the deletion the end of the "d" fragment. This region can 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 -7865/140 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000660: pCi-Pitx -2751/-2543 delta -2693/-2646 delta -2606/-2588:CES2:LacZ

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

197,501197,708

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 Fox n/a AAAAAACACTA [-2,640 / -2,630]
6 Homeobox n/a TAATC [-2,628 / -2,624]
7 MAD n/a GCCG [-2,583 / -2,580]
8 MAD n/a CGAC [-2,572 / -2,569]
9 MAD n/a GCCG [-2,550 / -2,547]

Sequence

Aniseed Coordinates: [197,501 / 197,708] on scaffold KhL153

The deleted sequences were replaced by "-".
The sequence is based on the first codon on the KH transcript.

Show sequence

Length: 208


AAACGCGACGACCTCCACGGATTAAGGTAATATTTCTTTTTATGTTGCCGCCCAG-----
---------------------------------------------GATGTAAAAAAACAC
TAATAATCTTCAGTAATTTCCGTGC------------------CTCCCGCCGTGTGAAAC
GACTTCAAAAGGCGGACAGTCGCCGCCA

Reference(s)

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

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