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CIS-REGULATION

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  1. EST 'AV888345' > 
  2. Transcript 'KH2012:KH.C11.210.v1...' > 
  3. Transcript 'KH2012:KH.C14.413.v2...' > 
  4. Transcript 'KH2012:KH.C2.57.v2.A...' > 
  5. Region 'REG00001092'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C2.4475337-4475581_μTcf7(a,b)|Fgf9/16/20

Short name

Fgf9/16/20 (-219pb)_μTcf7(a,b)

Region ID

REG00001092

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Izumi Oda-Ishii (2017-01-17)

Annotator

Marion Gueroult-Bellone (2017-09-03)

Curator

Marion Gueroult-Bellone (2018-03-13)

View position in WashU

Description

Mutation of the two more 5' Tcf7 binding sites (called Tcf7(a) and (b) in the article). This mutation abolishes the enhancer activity.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C2.4475337-4475581|Fgf9/16/20 by substitution

Regulated gene(s)

KH2012:KH.C2.125 (FGF16; FGF20; FGF9)

Construct(s) made to test this region

CONS00001063: p.Cirobu.REG.KH2012.C2.4475337-4475581_μTcf7(a,b)>GFP

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

4,475,3374,475,581

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 TCF/LEF n/a tttc [4,475,515 / 4,475,519] Third of the 3 Tcf7 binding site located in FGF9/16/20 enhancer. Its mutation alone does not affect the 219pb enhancer activity, but when it is associated with the mutation of the second Tcf7 binding site, the enhancer is inactivated.

Sequence

Aniseed Coordinates: [4,475,337 / 4,475,581] on scaffold KhC2

The first and second Tcf7 binding sites (TTTA and AAAG) were respectively replaced by CCCG (bases #5 to 8 of this sequence) and GGGA (bases #132 to 135).

Show sequence

Length: 245


gttgcccgcagcaattaagccgccatatagataactgtgcgcactggtcgtctgcccatt
tttagatagccttcccagtgcttctgttctcgagattacgatcacaagcgtaagacgtca
agttcaccgacgggaataagaatcgcgacccacacaagtcactgccgccccttcttcgtt
tctcgtcgtacacaaaagcagcgggaatcttgactcggaGCATCACTCTTGAATCGCCAC
TCAGC

Reference(s)

Oda-Ishii et al. (2016). A Maternal System Initiating the Zygotic Developmental Program through Combinatorial Repression in the Ascidian Embryo. PLoS Genet. 12(5):e1006045

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