Aniseed - Cis-regulation

Region 'REG00000212'

Cis-regulatory Region

Name

Ci-Mesp -138/39 T-boxB mutated2

Short name

n/a

Region ID

REG00000212

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Brad Davidson (2007-11-02)

Annotator

Patrick Lemaire (2007-11-02)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Characterisation of a small cardiac enhancer for the ciona Mesp gene demonstrated direct activation by the T-box transcription factor Tbx6c. Mutation of T-box site B greatly reduces the activity of the enhancer.

JGI transcript model was taken as reference for the region s coordinates (same in the paper).

Hierarchy of Regulatory Regions

Modification of Ci-Mesp -138/39 by substitution

Ci-Mesp -150bp/39bp REG00000643 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.C3.100 (MESP2; MSGN1; PTF1A)

Construct(s) made to test this region

CONS00000208: pCi-Mesp -138/39 T-boxB-mutated pfkh::lacZ

Show in situ data

Overview of functional TF binding sites in this region

3,537,1593,537,334

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	T-Box	n/a	TATTTCGCCT	[-131 / -122]
2	T-Box	n/a	CGGCGATAA	[-82 / -74]
3	T-Box	n/a	TAGACACCT	[-63 / -55]

Sequence

Aniseed Coordinates: [3,537,159 / 3,537,334] on scaffold KhC3

The sequence was retrieved from the JGI v1.0 assembly using the sequence found in the paper. T-box site B was inactivated by mutation from AGGCGATAAT to AGGCTATAAT.

Show sequence

Length: 176

CGACGGATATTTCGCCTTTGAAACTTAAAGGCTATAATGACTTTGCCCGTTTCATGCGGC
GATAAACGAACTAATTAGACACCTCCTACAGATATAATGGTAATTCAGAATCGTGTGGTT
ATGTAATTCACAAAAACATTTTAACAAAACAGGTTGATTTGAAACTTGTATTATGG

Reference(s)

Davidson et al. (2005). Uncoupling heart cell specification and migration in the simple chordate Ciona intestinalis. Development 132(21):4811-8