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CIS-REGULATION

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  1. Molecular Tool 'Gli-MO (Imai 2009)' > 
  2. Region 'REG00000144'

Cis-regulatory Region

Name

Ci-RAR -1653/281

Short name

n/a

Region ID

REG00000144

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 (2007-01-30)

Curator

Delphine Dauga (2010-06-23)

View position in WashU

Description

Be careful, coordinates in the paper may differ from ANISEED coordinates (coordinates in the paper: -1652). We took the KH transcript model as reference.


Hierarchy of Regulatory Regions

Modification of Ci-RAR -2585/281 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000136: pRAR -1653/281::LacZ

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

3,688,5093,690,442

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 / 3,690,442] on scaffold KhC9

Sequence obtained through cutting the base sequence with NruI restriction enzyme (Fujiwara, 2005). ANISEED coordinates may differ from the coordinates defined in the publication because of polymorphisms.

Show sequence

Length: 1,934


CGAAGTTTGTAATATTTGTTCAGCTGGACGGAGTGCTCATCATTCAGCACTGTTTGTTAT
GTAATGCTAATGTACGGTTCCCCATAAACAGTCGCACATATTCAGTTGACGTTACTACCG
ATTACTACGTAAAGCGACAAGATAATTATTTCTTTTTTGTGGAATGTGTTTGTTATTCTT
GAAACGTGGAGTTCCTGGTATGCGATCTTGCGTGACTAAATGTTGTAGGGCGTGACGGAG
CAAAACGCTCAACAAACTTGTAATGGGTTTTTACACTCCGTACTTTCAACCGTAAAGGCC
ATAATTTTTAATTAATTTTTGTGTGTTGACTTACATATGAGTAATTATTTTGTGTATTGG
TGTACATGTGATGTCATAGTTCTGTTATTTTAATGGCACATCATTGTTTTAGCACGTCTT
AGTATGTAGCTGGAGGAAATTTGCGTTTTTGTTGCCTTTTTCGGTTGGGACATTAGTGGT
AGATTATTTATTGTTTAAAACCCTCATTAATTTCTGCTCGATAAATCGCCGCAAGCGTCA
AGCTTTGCGATCTGGTAAACGTCCTTTTGTTTTGTAACAATTAAATTTTACCAGACAATG
GTTTAGTTTTCAGACGAAGTAATTATCGAAAGAAGTACAGTTCGCAATGGTTTTGTTGCA
TCGTTAAGAGTTAATTATATCAGTTGTTGAACATGGATGGTTAGACACGAGCTGTTTTGC
AAACTCTCGCATACTGTTTGTGTTGCTGACATAGAAAGGCGACGTTATTATAGCTGCTAT
GACCGACATTTTTACAGCGTTGTATCTTTTCTGTGTATTAATTGGACGTGTTATTTAAGC
ATAATACCCCGTTAGGTCGCTTAAGTTTAAATATGAATTAGCGCAAGCATATATTAGTGA
TTAGTAAGGGCAGTGCATATTTATATCAAACAGTAGCTGCGTGATAGGCAGTTAAGTACG
TGAAGCAGGCATGACAGTGCAAACAAGTCATATTGTGAGAGCTCTCCTGCTCCTCATTAG
AGAAAAAGGCAATTAGTTGGTGAGAGAAGTGAGAGAAAAGCAACGTCACTTGTATTGGAG
AAGTGCTGATGCTTGTTGGTCCGCGGTCACTGGTGAGGGAAGGCAGAAGCTGCTATGTAT
TGTTTGGAAATTCGCTGCGCAGGAAATCGCTAATAAAAGCTTGATATTTTCCACGATAGG
ACTTGCGATAAGGTTAAGCCATGGTAAACTGCAACGTGCGTTCTTCCCACGTTACTACAC
TTATAGAGCGTTATGCGAGACGCCGAATTCGGTTGCTGCAATATAGTAATGTTGCCACGT
AGAAAGATTTTGTAGATACAAAAAGAGCTTTTAAATTTTGAGAGTCTAGACAGTAAAGTG
TCAAGCTATTGCATTTAGTGCCACGTGTTATTACTGTCAGGAATGTAACAACTGCTTGCT
AACAGGGGTCAACTGCGTGATAATCTTCTGTTGAGCTTGAAGAGAGTATTCGTCACCTAA
TCACGTTTAAACTGTCGTCACTATAGCTGGTAGTTTATCACTGTAGTTGCTTTTTTCCTG
GTAAGCACTTCAGCTTAAAGAACAACATTGGCAGCCGCCCAAAATGTAACGTAACATCCG
AAATGTCGTTTTAACGTTTTCATATCGTTGCAGTTTGTTCTAGTTAATTAGTACAAAGCA
TTGAGCTTCCAGCAAGCAACTTGTTTTATTGTGGTGTCAGTATCAGCGTGATAGCGTTGT
TGAACTCTGCGTGAATACTATAGCATGATGAACGTTATGGAGTTTCAAGAACAATGGAGA
AACCGAATGAATGGAATCTTGAGCGACATGTTTCATCCTACATCTACAATATGCGATGCT
ATGACTGGCATGCCACGTTCGCATAATACAATGGCATCTATGATAGATTCCCCGCCACCG
TTACAGAATCTGAC

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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