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  1. Region 'REG00001128'
  2. Region 'REG00001340'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.S345:68522-68746_Sp1mut|KH.S345.4

Short name

n/a

Region ID

REG00001340

Status

Curated

Origin

engineered 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)


Description

This 245bp sequence, located in the upstream region of KH.S345.4, drives reporter gene expression in mesenchyme but not in notochord. It contains 3 E-box, 2 Sp1/Klf, and 1 Brachyury putative binding sites. Compared to the notochord-active WT enhancer, it lacks the first Sp1/Klf binding site.

Regulated gene(s)

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

Overview of functional TF binding sites in this region

68,52268,747

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 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.
2 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.
3 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.
4 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.
5 T-Box n/a tggcac [68,742 / 68,748] This Brachyury binding site is located in the notochord-active enhancer of KH.S345.4. Its mutation does not affect enhancer activity in the notochord.
6 T-Box n/a tggcac [68,742 / 68,748] This Brachyury binding site is located in the notochord-active enhancer of KH.S345.4. Its mutation does not affect enhancer activity in the notochord.

Sequence

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

The first Sp1/Klf binding site is mutated. GGTGG replaced by TTAGG. 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


actagccttaggataggcagggccaagtgcctggccatccttgcaagaagggccacgtac
tagatggccgcccgaaggccacctcaagccattatcaaatggcaaaggctctaaagagtg
ggggctacctaccgtaagctgcatggcgccggggcaaaagcgcaccaaaacaaactagcc
ggtggataggccgggcctgcaagaagggccaggtactagatggcac





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