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CIS-REGULATION

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  1. Region 'REG00001224'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C6:403839-404043|Onecut_HNF6

Short name

Onecut/HNF6 (-935/-731)

Region ID

REG00001224

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Maria Rosa Pezzotti (2017-08-06)

Annotator

Marion Gueroult-Bellone (2017-08-06)

Curator

Delphine Dauga (2017-09-06)

View position in WashU

Description

This sequence derives from the 260pb cis-regulatory sequence of Onecut/HNF6 (REG00001223) active in the sensory vesicle, the visceral ganglion, the tail and ectopic mesenchyme in Ciona intestinalis tailbuds and larvae. This 60pb deletion weakens the enhancer activity but does not reduce its spatial activity. Compared to the mother sequence, it lacks a Onecut binding site (-705/-689pb from TSS).

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C6:403782-404043|Onecut_HNF6 by deletion

Regulated gene(s)

KH2012:KH.C6.185 (ONECUT1; ONECUT2; ONECUT3)

Construct(s) made to test this region

CONS00001226: p.Cirobu.REG.KH2012.C6:403839-404043>LacZ

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

403,839404,043

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Homeobox n/a attgtagattgtttg [403,839 / 403,854] This Onecut/HNF6 binding site is one of the three identified binding sites of HNF6/Onecut minimal enhancer (the others are a Neurogenin and another HNF6/Onecut sites). It is located at -746/-730pb from HNF6/Onecut TSS. The mutational analysis not only indicates that all the three identified binding sites (Ngn, OCa and OCb) are necessary for Onecut activation in its endogenous territories but also that a cooperation between the two OC sites for the maintenance of its expression exists.
2 bHLH n/a gggccatctgctg [403,943 / 403,956] This Neurogenin binding site is one of the three identified binding sites of HNF6/Onecut minimal enhancer (the others are two HNF6/Onecut sites). It is located at -847/-835pb from HNF6/Onecut TSS. At neurula stage, Neurogenin is necessary for enhancer activation in the Onecut territories. Then, neurogenin seems to be the activator only in the visceral ganglion up to larva stage.

Sequence

Aniseed Coordinates: [403,839 / 404,043] on scaffold KhC6

This fragment extending from the position 1935 to 731 upstream of the translation start site was PCR-amplified from the 2.6kb Onecut/HNF6 enhancer (REG00001211). It contains 1 Onecut binding sites (-746/-730pb from TSS) and one Neurogenin binding site (-847/-835pb from TSS).

Show sequence

Length: 205


attgtagattgtttgaatttaaacaaattttcgatcagtcctttacggttgagctccaag
ctcgaatggaagactggtgccgtactcgtatgggagtaagcaatgggccatctgctgcgt
ttttctgttcggcttatatacgagtggttcgcgtcggcgcgcggtttgagcaaaaacaat
aggaccgctgtcgaaaacaaggcga

Reference(s)

Pezzotti et al. (2014). Auto and cross regulatory elements control Onecut expression in the ascidian nervous system. Dev. Biol. 390(2):273-87

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