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CIS-REGULATION

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  1. Clone 'ciad047m05' > 
  2. Region 'REG00001307'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.L65:310840-311092|Dyrk2/3/4

Short name

n/a

Region ID

REG00001307

Status

Curated

Origin

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

Type of Activity

no_output

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 253pb sequence, located in the upstream region of KH.L65.10, drives no reporter gene expression in notochord. It contains 3 Brachyury putative binding sites. Compared to the larger active WT enhancer, it lacks 2Fox, 2 E-box and 3 Brachyury binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.L65:310840-311303|Dyrk2/3/4 by deletion

Regulated gene(s)

KH2012:KH.L65.10 (DYRK2; DYRK3; DYRK4)

Construct(s) made to test this region

CONS00001327: p.Cirobu.REG.KH2012.L65:310840-311092>LacZ

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

310,840311,092

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 T-Box n/a gtgtta [310,973 / 310,979] This is one of the 6 Brachyrury binding sites located in the notochord-active enhancer of KH.L65.10. Deletion of the region containing the 3 distal Brachyury binding sites does not affect enhancer activity in the notochord.
2 T-Box n/a gtgtta [311,021 / 311,027] This is one of the 6 Brachyrury binding sites located in the notochord-active enhancer of KH.L65.10. Deletion of the region containing the 3 distal Brachyury binding sites does not affect enhancer activity in the notochord.
3 T-Box n/a gtgata [311,052 / 311,058] This is one of the 6 Brachyrury binding sites located in the notochord-active enhancer of KH.L65.10. Deletion of the region containing the 3 distal Brachyury binding sites does not affect enhancer activity in the notochord.

Sequence

Aniseed Coordinates: [310,840 / 311,092] on scaffold KhL65

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS3.d and TableS5 of Jose-Edwards et al. 2015.

Show sequence

Length: 253


gattacagaaccgaatcgtgttcgtttgaaggggacaataatgacatgaggtcataaaga
gcattgtcagagcggtaaaaagatgtgttttgtatacgtgggttcgtattagatttctct
tgttgtcaatacagtgttaaacagcgttgggaatgtcctattgtgatgttacgcgtcctg
tgtgttaggttgaacgctgttctgctcttactgtgataagataggggatagatatctcgt
gtgtgtctggtac

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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