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CIS-REGULATION

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  1. Molecular Tool 'Mnx-MO (Imai 2009)' > 
  2. Region 'REG00000146'

Cis-regulatory Region

Name

Ci-RAR -1653/281 delta -1110/-473

Short name

n/a

Region ID

REG00000146

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 (coordinates in the paper: -1652). 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

CONS00000137: pRAR -1653/281 delta -1110/-473::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 HindIII restriction enzyme (Fujiwara, 2005). Region deleted was replaced by "-". 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
AGC---------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
------------------------------------------------------------
----------------------------------------TTGATATTTTCCACGATAGG
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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