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CIS-REGULATION

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  1. Clone 'man27f08' > 
  2. Clone 'cima867121' > 
  3. Clone 'cibd069n14' > 
  4. Region 'REG00001327'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C10:2816169-2817555|Ubp4,Ubp8,Ubp11

Short name

n/a

Region ID

REG00001327

Status

Curated

Origin

natural region from C. robusta formely Ciona int. type A

Type of Activity

regulatory_region
(complex_region)

Author

Diana S. José-Edwards (2018-05-08)

Annotator

Marion Gueroult-Bellone (2018-05-08)

Curator

Marion Gueroult-Bellone (2018-05-08)

View position in WashU

Description

This 1387bp sequence, located in the downstream region of KH.C10.320, drives reporter gene expression in notochord. It contains a cluster of 2 E-box and 1 Brachyury putative binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C10:2815582-2817555|Ubp4,Ubp8,Ubp11 by deletion

Regulated gene(s)

KH2012:KH.C10.320 (USP11; USP32; USP4)

Construct(s) made to test this region

CONS00001347: p.Cirobu.REG.KH2012.C10:2816169-2817555>LacZ

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

2,816,1692,817,555

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 T-Box n/a gtgtcta [2,816,571 / 2,816,578] This Brachyury binding site is located in the notochord enhancer of C10.320.
2 bHLH n/a cagttg [2,816,618 / 2,816,624] This is one of the 2 E-box binding sites located in the notochord enhancer of C10.320.
3 bHLH n/a cagttg [2,816,637 / 2,816,643] This is one of the 2 E-box binding sites located in the notochord enhancer of C10.320. Its deletion or its mutation inhibits enhancer activity in the notochord.

Sequence

Aniseed Coordinates: [2,816,169 / 2,817,555] on scaffold KhC10

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1.b and TableS5 of Jose-Edwards et al. 2015.

Show sequence

Length: 1,387


ggacttgggatttacgccagattttgctcaatacccggaaagccgattcaagtctttcat
gcgagcggtgccgcgacattccttctatttaccgttgttagttgtttaataaaccacgat
caaggtatttggatattatgtgctgaaggtatcccatcttttcccaccttactatattat
taacatttatactgaaaagcattttaaatattacaatttggaaatttcagtatgaaaagc
atgacaattttaatttcagcacaagcgctttatgattcgttgtaattattatttcagtat
ccccgccttttcgtgccgctggtctcgttttagaggcagcgcttttttcttgcgcaacga
aactgtttgacagcctgttggagcctagttagttttcgccgtgtgtctagtcaccacagt
gctgtttagttcaagtaagtttaagtaagcagttgacgtttaagtaagcagttgacgagc
taatatagagtactgtgggggaagatgggacacctttagcacttaatatccaaatatcct
gatcgtgttttaaacaattaacgacagtctatgaaagtcgtagggatacggtttaataaa
tccttgaatgttctttgtttattaccaaatgggacgaaaaggtgtcccatcttcccccac
cctactatacctagaaaatgctggtttttgcgaaccgttaaaacagatgcaaactggcct
tgattggttttcctataaccagcgtgatatatcttccacattaactggatcaatgaaaca
agttaattaatcttcaagttccttagcaaacaagcttaccagtaacggtgtttggtttgt
cgcggctcttgtttaatatcgcataaatgttccaggaattgttactaaccgtacagtctc
gatatcagtgcaaattgtcacgcgaatattttcacgttaacccagttttgtgagtttttt
acttgaaaattattttaaagtaggaacgcgggattatttggttgtctagaccagtgctct
tcgacttttaatgggttggtgaaccccttaagttgttgcgtcgaactcatgcacccctga
ttgctttaacgtaaaactaatgaagtttcacaattcccagtgatgcaagatataaaattc
atataaaaaaatgtaggaaagtggctaaattggttaaaaaagtttaaaatgaaaaaatat
tgctgaaaattgtcgaagtttgtgatgcacccttgtatacctttttgcactggtgcaccc
ctggcatattttggtgcaccctagggtgcaccgtgcacaccggttgaagagcactggtct
agactctagagtgtcctatataacccgcgaattcgttacttatattgtatttgataacgc
ggtattt

Reference(s)

José-Edwards et al. (2015). Brachyury, Foxa2 and the cis-Regulatory Origins of the Notochord. PLoS Genet. 11(12):e1005730

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