Login
Help

CIS-REGULATION

Submit your Data

  1. Region 'REG00001082'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C2.4474936-4475581|Fgf9/16/20

Short name

Fgf9/16/20 (-620pb)

Region ID

REG00001082

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Izumi Oda-Ishii ()

Annotator

Marion Gueroult-Bellone (2017-09-03)

Curator

Marion Gueroult-Bellone (2018-03-13)

View position in WashU

Description

A series of deletion constructs showed that 620 bp upstream sequence of the transcription start site of Fgf9/16/20 is able to drive expression of the reporter gene specifically in the entire vegetal hemisphere domain. This region contains three Tcf7-binding sites that are critical for expression in the vegetal hemisphere domain.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C2.4472575-4475581|Fgf9/16/20 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00001055: p.Cirobu.REG.KH2012.C2.4474936-4475581>GFP

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

4,474,9364,475,581

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 TCF/LEF n/a ttta [4,475,341 / 4,475,345] First of the 3 Tcf7 binding site located in FGF9/16/20 enhancer. Its mutation alone does not affect a lot the 219pb enhancer activity, but when both first and second Tcf7 binding sites are mutated, the enhancer is inactivated.
2 TCF/LEF n/a aaag [4,475,468 / 4,475,472] Second of the 3 Tcf7 binding site located in FGF9/16/20 enhancer. Its mutation alone does nearly anihilates the 219pb enhancer activity, and when associated to the mutation of another Tcf7 binding site, the enhancer is inactivated.
3 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: [4,474,936 / 4,475,581] on scaffold KhC2

Sequence retrieved via the tool BLAST of Aniseed, thanks to the supporting information of the article (S4 Fig.)

Show sequence

Length: 646


ttataaaaaatattgtgggaaaagttggctagggtcaaaacgttgtctcgtttttgattt
tgaaacgttcgcgccgcagtcttctataaaaaaagctttagaacagtagcgacttttcaa
aaccaagtatagttgactcatggttgaagggatttgtaaaattagccattgcatattacg
tagttttaaacaatggccctttgacggcagaaggactctgccttgagctaccaagtcgaa
ggtttaggcacgagaggcttaattctccttattgcagttagtgtaaacaacttttaagta
gattttttataatcgcttcattgttaaacgcatatctgaaaattagcaacagtattctta
tttggttcatgatctaacgttgtttttgcttttcatcttaagttgtttacagcaattaag
ccgccatatagataactgtgcgcactggtcgtctgcccatttttagatagccttcccagt
gcttctgtactcgagattacgatcacaagcgtaagacgtcaagttcaccgacaaagataa
gaatcgcgacccacacaagtcactgccgccccttcttcgtttctcgtcgtacacaaaagc
agcgggaatcttgactcggagcatcactcttgaatcgccactcagc

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

Back to Top