Aniseed - Cis-regulation

Region 'REG00001198' >
Region 'REG00000710'

Cis-regulatory Region

Name

Ci-PDE9 6166/6329

Short name

n/a

Region ID

REG00000710

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Pierre Khoueiry (2010-06-08)

Annotator

Pierre Khoueiry (2010-06-08)

Curator

Delphine Dauga (2010-06-08)

View position in WashU

Description

+1 is based on the start of the first exon of the KH transcript model.

Hierarchy of Regulatory Regions

Modification of Ci-PDE9 -4412/6333 by deletion

Ci-PDE9 -4412/6333 REG00000709 [ no_output ]
- Ci-PDE9 -4412/20 REG00000564 [ regulatory_region (extended_promoter) ]
- Ci-PDE9 6166/6329 REG00000710 [ regulatory_region (enhancer) ]

Regulated gene(s)

KH2012:KH.C9.608 (PDE2A; PDE8A; PDE9A)

Construct(s) made to test this region

CONS00000678: Ci-PDE9 6166/6329

Show in situ data

Overview of functional TF binding sites in this region

5,968,1735,968,335

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	ZnF_(GATA)	n/a	TATC	[6,207 / 6,210]
2	ZnF_(GATA)	n/a	GATA	[6,230 / 6,233]
3	Ets	n/a	GGAA	[6,258 / 6,261]
4	ZnF_(GATA)	n/a	TATC	[6,277 / 6,280]
5	Ets	n/a	ATCC	[6,278 / 6,281]
6	Ets	n/a	GGAA	[6,282 / 6,285]
7	Ets	n/a	GGAA	[6,292 / 6,295]
8	Ets	n/a	TTCC	[6,297 / 6,300]

Sequence

Aniseed Coordinates: [5,968,173 / 5,968,335] on scaffold KhC9

Sequence from JGI V1.0

Show sequence

Length: 163

ATCGCGACCACTGATCGTCGCGTAATTATTTTGAGGCAACATATCGATCAGCGATCTCGG
CAACGATAGCGAAATTCTCCCTCAGCTTTCTCGGAAGCGCTCGCTGCTGGTTATCCGGAA
AAGTGCGGAACTTCCCTCGCTCTCCAGCAGCAACGACTCGGGA

Reference(s)

Khoueiry et al. (2010). A cis-regulatory signature in ascidians and flies, independent of transcription factor binding sites. Curr. Biol. 20(9):792-802