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CIS-REGULATION

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  1. Region 'REG00000151'

Cis-regulatory Region

Name

Ci-RAR -288/281

Short name

n/a

Region ID

REG00000151

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Fujiwara team (2007-01-19)

Annotator

Clara Degos (2010-07-22)

Curator

Delphine Dauga (2010-06-28)

View position in WashU

Description

Be careful, coordinates in the paper may differ from ANISEED coordinates. We took the KH transcript model as reference.


Hierarchy of Regulatory Regions

Modification of Ci-RAR -549/281 by deletion

Regulated gene(s)

KH2012:KH.C9.580 (RARA; RARB; RARG)

Construct(s) made to test this region

CONS00000142: pRAR -288/281::LacZ

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

3,688,5093,689,077

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 bHLH n/a CACGTG [-252 / -247]
2 bHLH n/a CAACTG [-225 / -220]

Sequence

Aniseed Coordinates: [3,688,509 / 3,689,077] on scaffold KhC9

Sequence obtained using the restriction enzyme XbaI Fujiwara (2005). ANISEED coordinates may differ from the coordinates defined in the publication because of polymorphisms.

Show sequence

Length: 569


CTAGACAGTAAAGTGTCAAGCTATTGCATTTAGTGCCACGTGTTATTACTGTCAGGAATG
TAACAACTGCTTGCTAACAGGGGTCAACTGCGTGATAATCTTCTGTTGAGCTTGAAGAGA
GTATTCGTCACCTAATCACGTTTAAACTGTCGTCACTATAGCTGGTAGTTTATCACTGTA
GTTGCTTTTTTCCTGGTAAGCACTTCAGCTTAAAGAACAACATTGGCAGCCGCCCAAAAT
GTAACGTAACATCCGAAATGTCGTTTTAACGTTTTCATATCGTTGCAGTTTGTTCTAGTT
AATTAGTACAAAGCATTGAGCTTCCAGCAAGCAACTTGTTTTATTGTGGTGTCAGTATCA
GCGTGATAGCGTTGTTGAACTCTGCGTGAATACTATAGCATGATGAACGTTATGGAGTTT
CAAGAACAATGGAGAAACCGAATGAATGGAATCTTGAGCGACATGTTTCATCCTACATCT
ACAATATGCGATGCTATGACTGGCATGCCACGTTCGCATAATACAATGGCATCTATGATA
GATTCCCCGCCACCGTTACAGAATCTGAC

Reference(s)

Fujiwara et al. (2005). Promoter activity of the retinoic acid receptor gene in the Ciona intestinalis embryo. Dev. Dyn. 232(4):1124-30

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