- Region 'REG00001128' >
- 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)
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.
Modification of Cirobu.REG.KH2012.S345:68522-68746|KH.S345.4 by substitution
- Cirobu.REG.KH2012.S345:67958-69408|KH.S345.4 REG00001335 [ regulatory_region (complex_region) ]
- Cirobu.REG.KH2012.S345:68522-68829|KH.S345.4 REG00001336 [ regulatory_region (enhancer) ]
CONS00001360: p.Cirobu.REG.KH2012.S345:68522-68746_Sp1mut>LacZ
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. |
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.
actagccttaggataggcagggccaagtgcctggccatccttgcaagaagggccacgtac
tagatggccgcccgaaggccacctcaagccattatcaaatggcaaaggctctaaagagtg
ggggctacctaccgtaagctgcatggcgccggggcaaaagcgcaccaaaacaaactagcc
ggtggataggccgggcctgcaagaagggccaggtactagatggcac