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CIS-REGULATION

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  1. Region 'REG00000151' > 
  2. Region 'REG00000761' > 
  3. Region 'REG00000768' > 
  4. Transcript 'Moocul.CG.ELv1_2.S24...' > 
  5. Region 'REG00000147'

Cis-regulatory Region

Name

Ci-RAR -1525/281

Short name

n/a

Region ID

REG00000147

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 (2007-01-31)

Curator

Delphine Dauga (2010-06-28)

View position in WashU

Description

Be careful, coordinates in the paper may differ from ANISEED coordinates (coordinates in the paper: -1524). We took the KH transcript model as reference.


Hierarchy of Regulatory Regions

Modification of Ci-RAR -1653/281 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000138: pRAR -1525/281::LacZ

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

3,688,5093,690,314

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 / 3,690,314] on scaffold KhC9

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

Show sequence

Length: 1,806


GTAAAGCGACAAGATAATTATTTCTTTTTTGTGGAATGTGTTTGTTATTCTTGAAACGTG
GAGTTCCTGGTATGCGATCTTGCGTGACTAAATGTTGTAGGGCGTGACGGAGCAAAACGC
TCAACAAACTTGTAATGGGTTTTTACACTCCGTACTTTCAACCGTAAAGGCCATAATTTT
TAATTAATTTTTGTGTGTTGACTTACATATGAGTAATTATTTTGTGTATTGGTGTACATG
TGATGTCATAGTTCTGTTATTTTAATGGCACATCATTGTTTTAGCACGTCTTAGTATGTA
GCTGGAGGAAATTTGCGTTTTTGTTGCCTTTTTCGGTTGGGACATTAGTGGTAGATTATT
TATTGTTTAAAACCCTCATTAATTTCTGCTCGATAAATCGCCGCAAGCGTCAAGCTTTGC
GATCTGGTAAACGTCCTTTTGTTTTGTAACAATTAAATTTTACCAGACAATGGTTTAGTT
TTCAGACGAAGTAATTATCGAAAGAAGTACAGTTCGCAATGGTTTTGTTGCATCGTTAAG
AGTTAATTATATCAGTTGTTGAACATGGATGGTTAGACACGAGCTGTTTTGCAAACTCTC
GCATACTGTTTGTGTTGCTGACATAGAAAGGCGACGTTATTATAGCTGCTATGACCGACA
TTTTTACAGCGTTGTATCTTTTCTGTGTATTAATTGGACGTGTTATTTAAGCATAATACC
CCGTTAGGTCGCTTAAGTTTAAATATGAATTAGCGCAAGCATATATTAGTGATTAGTAAG
GGCAGTGCATATTTATATCAAACAGTAGCTGCGTGATAGGCAGTTAAGTACGTGAAGCAG
GCATGACAGTGCAAACAAGTCATATTGTGAGAGCTCTCCTGCTCCTCATTAGAGAAAAAG
GCAATTAGTTGGTGAGAGAAGTGAGAGAAAAGCAACGTCACTTGTATTGGAGAAGTGCTG
ATGCTTGTTGGTCCGCGGTCACTGGTGAGGGAAGGCAGAAGCTGCTATGTATTGTTTGGA
AATTCGCTGCGCAGGAAATCGCTAATAAAAGCTTGATATTTTCCACGATAGGACTTGCGA
TAAGGTTAAGCCATGGTAAACTGCAACGTGCGTTCTTCCCACGTTACTACACTTATAGAG
CGTTATGCGAGACGCCGAATTCGGTTGCTGCAATATAGTAATGTTGCCACGTAGAAAGAT
TTTGTAGATACAAAAAGAGCTTTTAAATTTTGAGAGTCTAGACAGTAAAGTGTCAAGCTA
TTGCATTTAGTGCCACGTGTTATTACTGTCAGGAATGTAACAACTGCTTGCTAACAGGGG
TCAACTGCGTGATAATCTTCTGTTGAGCTTGAAGAGAGTATTCGTCACCTAATCACGTTT
AAACTGTCGTCACTATAGCTGGTAGTTTATCACTGTAGTTGCTTTTTTCCTGGTAAGCAC
TTCAGCTTAAAGAACAACATTGGCAGCCGCCCAAAATGTAACGTAACATCCGAAATGTCG
TTTTAACGTTTTCATATCGTTGCAGTTTGTTCTAGTTAATTAGTACAAAGCATTGAGCTT
CCAGCAAGCAACTTGTTTTATTGTGGTGTCAGTATCAGCGTGATAGCGTTGTTGAACTCT
GCGTGAATACTATAGCATGATGAACGTTATGGAGTTTCAAGAACAATGGAGAAACCGAAT
GAATGGAATCTTGAGCGACATGTTTCATCCTACATCTACAATATGCGATGCTATGACTGG
CATGCCACGTTCGCATAATACAATGGCATCTATGATAGATTCCCCGCCACCGTTACAGAA
TCTGAC

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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