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CIS-REGULATION

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  1. Molecular Tool 'Mnx-MO (Imai 2009)' > 
  2. Region 'REG00000146' > 
  3. Clone 'citb4g19' > 
  4. Region 'REG00000143'

Cis-regulatory Region

Name

Ci-RAR -2585/281

Short name

n/a

Region ID

REG00000143

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 (2010-06-23)

View position in WashU

Description

Be careful, coordinates in the paper may differ from ANISEED coordinates (coordinates in the paper: -2486). We took the KH transcript model as reference.


Hierarchy of Regulatory Regions

Modification of Ci-RAR -4008/281 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000135: pRAR -2585/281::LacZ

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

3,688,5093,691,374

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 / 3,691,374] on scaffold KhC9

Sequence obtained by cutting the base region with the restriction enzyme MscI. ANISEED coordinates may differ from the coordinates defined in the publication because of polymorphisms.

Show sequence

Length: 2,866


ATTACGTTGTAAAACAAGAATCGACCATTTGTGTGTGTGTGATAACTTAACACGTCGTAC
ACTGAACATGAAAGCAAATTAAATCTGATATAGCGGAAAGCCCACGAGACCAGTATGTAT
GATATAATTATATCGCTGAAAATCCCATCCTATAATTTCAACTTAACATACCATTGCGAT
ACACGGGAATCGAGTAATTATCTGACCTAACTTATGTAGGTTGTGGTATTGAGTAATGTT
ATTTAGTTCATGTTATCTTGTTTTTCACCAAGAACAGACACCTAAGGTGGGAGTTAGCGA
TTGTTTGTGTGCGGTGGTATTAGCGTTTCGTAAGATGCCCTGGAGACAAAAATCTTTTGT
TTGTTTTTGTTGACGTGGATCGTAAGTTGTGGGCCAAGCGTCTTGACCTTCTTCATAAGT
ATTATGTGTTGTTACCACCATAATACACTTCTTATCAGTTGTTTTTAAATCAAGAGATAA
ACTCCCAACGAAGTTCTAACCACAGTGTATCTCAATGCACTTGATTGACTCGTCGCGGTA
GATTGACACGTTTCTCTTATAATAAGCATTATAATAGGATGGGGAAGACGGGACACCTTT
AGCACAAAAAAAACAGCGGTCTATGGATGTCGTAAGGATACTGTTTTACAACACTTTGAA
TGTTCTTTGTTTACTACTAAGTGGGGCGAGAAAATAAAATGCGAAGGTGTCCCATCTTTC
CCCATCCTACTGTATGTTGTAATTATCCGAAGCTCGAATGTAACCCAATATTAATAAATA
TCCATTTTTTATGACGTCATTTTTAGCTATGAAAAACATTATGTACAACGTTTTTCAAAT
ATTTCTGTATGTTGTGCGAATTTTTTTTTTTTAAAGAGTACACGGTTAGCTAAAGCTGTA
ATGTATTATGATGTCAGCAAGGGGGTATCTCGCGAAGTTTGTAATATTTGTTCAGCTGGA
CGGAGTGCTCATCATTCAGCACTGTTTGTTATGTAATGCTAATGTACGGTTCCCCATAAA
CAGTCGCACATATTCAGTTGACGTTACTACCGATTACTACGTAAAGCGACAAGATAATTA
TTTCTTTTTTGTGGAATGTGTTTGTTATTCTTGAAACGTGGAGTTCCTGGTATGCGATCT
TGCGTGACTAAATGTTGTAGGGCGTGACGGAGCAAAACGCTCAACAAACTTGTAATGGGT
TTTTACACTCCGTACTTTCAACCGTAAAGGCCATAATTTTTAATTAATTTTTGTGTGTTG
ACTTACATATGAGTAATTATTTTGTGTATTGGTGTACATGTGATGTCATAGTTCTGTTAT
TTTAATGGCACATCATTGTTTTAGCACGTCTTAGTATGTAGCTGGAGGAAATTTGCGTTT
TTGTTGCCTTTTTCGGTTGGGACATTAGTGGTAGATTATTTATTGTTTAAAACCCTCATT
AATTTCTGCTCGATAAATCGCCGCAAGCGTCAAGCTTTGCGATCTGGTAAACGTCCTTTT
GTTTTGTAACAATTAAATTTTACCAGACAATGGTTTAGTTTTCAGACGAAGTAATTATCG
AAAGAAGTACAGTTCGCAATGGTTTTGTTGCATCGTTAAGAGTTAATTATATCAGTTGTT
GAACATGGATGGTTAGACACGAGCTGTTTTGCAAACTCTCGCATACTGTTTGTGTTGCTG
ACATAGAAAGGCGACGTTATTATAGCTGCTATGACCGACATTTTTACAGCGTTGTATCTT
TTCTGTGTATTAATTGGACGTGTTATTTAAGCATAATACCCCGTTAGGTCGCTTAAGTTT
AAATATGAATTAGCGCAAGCATATATTAGTGATTAGTAAGGGCAGTGCATATTTATATCA
AACAGTAGCTGCGTGATAGGCAGTTAAGTACGTGAAGCAGGCATGACAGTGCAAACAAGT
CATATTGTGAGAGCTCTCCTGCTCCTCATTAGAGAAAAAGGCAATTAGTTGGTGAGAGAA
GTGAGAGAAAAGCAACGTCACTTGTATTGGAGAAGTGCTGATGCTTGTTGGTCCGCGGTC
ACTGGTGAGGGAAGGCAGAAGCTGCTATGTATTGTTTGGAAATTCGCTGCGCAGGAAATC
GCTAATAAAAGCTTGATATTTTCCACGATAGGACTTGCGATAAGGTTAAGCCATGGTAAA
CTGCAACGTGCGTTCTTCCCACGTTACTACACTTATAGAGCGTTATGCGAGACGCCGAAT
TCGGTTGCTGCAATATAGTAATGTTGCCACGTAGAAAGATTTTGTAGATACAAAAAGAGC
TTTTAAATTTTGAGAGTCTAGACAGTAAAGTGTCAAGCTATTGCATTTAGTGCCACGTGT
TATTACTGTCAGGAATGTAACAACTGCTTGCTAACAGGGGTCAACTGCGTGATAATCTTC
TGTTGAGCTTGAAGAGAGTATTCGTCACCTAATCACGTTTAAACTGTCGTCACTATAGCT
GGTAGTTTATCACTGTAGTTGCTTTTTTCCTGGTAAGCACTTCAGCTTAAAGAACAACAT
TGGCAGCCGCCCAAAATGTAACGTAACATCCGAAATGTCGTTTTAACGTTTTCATATCGT
TGCAGTTTGTTCTAGTTAATTAGTACAAAGCATTGAGCTTCCAGCAAGCAACTTGTTTTA
TTGTGGTGTCAGTATCAGCGTGATAGCGTTGTTGAACTCTGCGTGAATACTATAGCATGA
TGAACGTTATGGAGTTTCAAGAACAATGGAGAAACCGAATGAATGGAATCTTGAGCGACA
TGTTTCATCCTACATCTACAATATGCGATGCTATGACTGGCATGCCACGTTCGCATAATA
CAATGGCATCTATGATAGATTCCCCGCCACCGTTACAGAATCTGAC

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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