Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-Sna -618/-360 T2/T3 mutated*

Short name

n/a

Region ID

REG00000067

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Levine Team (2006-10-01)

Annotator

Patrick Lemaire (2007-11-06)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

mutated version of ci-sna -618 -360 in which the two T-box sites are inactivated by point mutation (all the A were mutated in G).

This region is named 262bp (A=>G)2 in the paper (Erives et al 2000).

Hierarchy of Regulatory Regions

Modification of Ci-Sna -618/-356 by substitution

Ci-Sna -3200/codon 15 REG00000051 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.C3.751 (SNAI1; SNAI2; SNAI3)

Construct(s) made to test this region

CONS00000057: pCi-Snail -618/-356 T2/T3 A->G pfkh::NLS LacZ

Show in situ data

Overview of functional TF binding sites in this region

5,678,6715,678,928

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	bHLH	n/a	CAACTG	[5,678,683 / 5,678,688]
2	bHLH	n/a	CAACTG	[5,678,785 / 5,678,790]
3	bHLH	n/a	CAACTG	[5,678,901 / 5,678,906]

Sequence

Aniseed Coordinates: [5,678,671 / 5,678,928] on scaffold KhC3

Sites T2 (TTTGGCACCT) and T3 (GATCCCACCT) were respectively mutated into TTCGGCACCT and GACCCCACCT. SEquence derived from AF302999, which differs slightly from the JGI v1.0 sequence.

Show sequence

Length: 262

AATCTGTGGCGACAACTGTGGTCTGATTTACAGGCGAGTTGGACGGAGTTGACAGGTCGC
GAAAGCGACCCCACCTTCGTGTCTGGGTTTCGAGGTGCCGCCCGTCGTGCAGTACAACTG
TGCGGTCAAGTTGAGAGCAAGAAGACACCACAGCGCGCTTTGAAGCGTCCAAGCCCGCCC
GCTGAGCAGGGCGGATAGCTCGTTCGGCACCTCGTCCTGGCATCGTCCCGCAACTGTCAA
CCTTCTTCGTTACAAACGTCCT

Reference(s)

Erives et al. (2000). Characterization of a maternal T-Box gene in Ciona intestinalis. Dev. Biol. 225(1):169-78