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CIS-REGULATION

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  1. Region 'REG00001228'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C6:403782-403940|Onecut_HNF6

Short name

Onecut/HNF6 (-833/-674)

Region ID

REG00001228

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 260bb 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. All these activity domains except ectopic mesenchyme are lost by this deletion. Compared to the mother sequence, this fragment lacks one Neurogenin binding site (-847/-835pb 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

CONS00001230: p.Cirobu.REG.KH2012.C6:403782-403940>LacZ

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

403,782403,940

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Homeobox n/a tataattgaatattttt [403,797 / 403,814] 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 -705/-689pb 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 Homeobox n/a aattgtagattgtttga [403,838 / 403,855] 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.

Sequence

Aniseed Coordinates: [403,782 / 403,940] on scaffold KhC6

833 to 674 upstream of the translation start site was PCR-amplified from the 2.6kb Onecut/HNF6 enhancer (REG00001211). It contains 2 Onecut binding sites (-746/-730pb and -705/-689pb from TSS).

Show sequence

Length: 159


ctgactaaactgttttataattgaatatttttctttccaaggcttgaacttgtcttaatt
gtagattgtttgaatttaaacaaattttcgatcagtcctttacggttgagctccaagctc
gaatggaagactggtgccgtactcgtatgggagtaagca

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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