Login
Help

CIS-REGULATION

Submit your Data

  1. Region 'REG00001256' > 
  2. Clone 'cien46188' > 
  3. Clone 'cien131724' > 
  4. Transcript 'Phfumi.CG.MTP2014.S1...' > 
  5. Region 'REG00001339'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.S345:68522-68746|KH.S345.4

Short name

n/a

Region ID

REG00001339

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

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 145bp sequence, located in the upstream region of KH.S345.4, drives reporter gene expression in notochord and mesenchyme. It contains 3 E-box, 3 Sp1/Klf and 1 Brachyury putative binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.S345:68522-68829|KH.S345.4 by deletion

Regulated gene(s)

KH2012:KH.S345.4 (KH.S345.4)

Construct(s) made to test this region

CONS00001359: p.Cirobu.REG.KH2012.S345:68522-68746>LacZ

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

68,52268,747

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(C2H2) n/a ggtgg [68,529 / 68,534] This the first of the 4 Sp1/Klf binding sites located in the notochord-active enhancer of KH.S345.4. Deletion of the region containing this binding site, or its mutation inhibits enhancer activity in the notochord.
2 bHLH n/a caagtg [68,545 / 68,551] This the first of the 3 E-box binding sites located in the notochord-active enhancer of KH.S345.4.
3 ZnF_(C2H2) n/a ccacc [68,600 / 68,605] This is one of the 4 Sp1/Klf binding sites located in the notochord-active enhancer of KH.S345.4.
4 bHLH n/a caaatg [68,617 / 68,623] This is one of the 3 E-box binding sites located in the notochord-active enhancer of KH.S345.4.
5 ZnF_(C2H2) n/a ggtgg [68,702 / 68,707] This is one of the 4 Sp1/Klf binding sites located in the notochord-active enhancer of KH.S345.4.

Sequence

Aniseed Coordinates: [68,522 / 68,747] on scaffold KhS345

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

Show sequence

Length: 226


actagccggtggataggcagggccaagtgcctggccatccttgcaagaagggccacgtac
tagatggccgcccgaaggccacctcaagccattatcaaatggcaaaggctctaaagagtg
ggggctacctaccgtaagctgcatggcgccggggcaaaagcgcaccaaaacaaactagcc
ggtggataggccgggcctgcaagaagggccaggtactagatggcac

Reference(s)

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

Back to Top