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CIS-REGULATION

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  1. Transcript 'KH2012:KH.C2.450.v1....' > 
  2. Molecular Tool 'Hedgehog2-MO (Imai 2009)' > 
  3. Transcript 'Boleac.CG.SB_v3.S249...' > 
  4. Region 'REG00000152'

Cis-regulatory Region

Name

Ci-RAR -1326/-226

Short name

n/a

Region ID

REG00000152

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

Daniel Sobral (2007-01-19)

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 -1525/281 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000143: pRAR -1326/-226::LacZ

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

3,689,0163,690,115

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

Sequence

Aniseed Coordinates: [3,689,016 / 3,690,115] on scaffold KhC9

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

Show sequence

Length: 1,100


GACTTACATATGAGTAATTATTTTGTGTATTGGTGTACATGTGATGTCATAGTTCTGTTA
TTTTAATGGCACATCATTGTTTTAGCACGTCTTAGTATGTAGCTGGAGGAAATTTGCGTT
TTTGTTGCCTTTTTCGGTTGGGACATTAGTGGTAGATTATTTATTGTTTAAAACCCTCAT
TAATTTCTGCTCGATAAATCGCCGCAAGCGTCAAGCTTTGCGATCTGGTAAACGTCCTTT
TGTTTTGTAACAATTAAATTTTACCAGACAATGGTTTAGTTTTCAGACGAAGTAATTATC
GAAAGAAGTACAGTTCGCAATGGTTTTGTTGCATCGTTAAGAGTTAATTATATCAGTTGT
TGAACATGGATGGTTAGACACGAGCTGTTTTGCAAACTCTCGCATACTGTTTGTGTTGCT
GACATAGAAAGGCGACGTTATTATAGCTGCTATGACCGACATTTTTACAGCGTTGTATCT
TTTCTGTGTATTAATTGGACGTGTTATTTAAGCATAATACCCCGTTAGGTCGCTTAAGTT
TAAATATGAATTAGCGCAAGCATATATTAGTGATTAGTAAGGGCAGTGCATATTTATATC
AAACAGTAGCTGCGTGATAGGCAGTTAAGTACGTGAAGCAGGCATGACAGTGCAAACAAG
TCATATTGTGAGAGCTCTCCTGCTCCTCATTAGAGAAAAAGGCAATTAGTTGGTGAGAGA
AGTGAGAGAAAAGCAACGTCACTTGTATTGGAGAAGTGCTGATGCTTGTTGGTCCGCGGT
CACTGGTGAGGGAAGGCAGAAGCTGCTATGTATTGTTTGGAAATTCGCTGCGCAGGAAAT
CGCTAATAAAAGCTTGATATTTTCCACGATAGGACTTGCGATAAGGTTAAGCCATGGTAA
ACTGCAACGTGCGTTCTTCCCACGTTACTACACTTATAGAGCGTTATGCGAGACGCCGAA
TTCGGTTGCTGCAATATAGTAATGTTGCCACGTAGAAAGATTTTGTAGATACAAAAAGAG
CTTTTAAATTTTGAGAGTCTAGACAGTAAAGTGTCAAGCTATTGCATTTAGTGCCACGTG
TTATTACTGTCAGGAATGTA

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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