Aniseed - Cis-regulation

Region 'REG00000209'

Cis-regulatory Region

Name

Ci-Mesp -110/39 T-boxB mutated2

Short name

n/a

Region ID

REG00000209

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Brad Davidson (2007-11-01)

Annotator

Patrick Lemaire (2007-11-01)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Characterisation of a minimal cardiac enhancer for the ciona Mesp gene demonstrated direct activation by the T-box transcription factor Tbx6c :
The T-box domain to -110 bp from -102 bp upstream the +1 of transcritption of the Mesp gene is sufficient to drive reporter gene expression in the B7.5 lineage of electroporated embryo.

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

Hierarchy of Regulatory Regions

Modification of Ci-Mesp -110/39 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

CONS00000205: pCi-Mesp -110/39 T-boxB mutated2 pfkh::lacZ

Show in situ data

Overview of functional TF binding sites in this region

3,537,1593,537,306

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

Sequence

Aniseed Coordinates: [3,537,159 / 3,537,306] on scaffold KhC3

The sequence was retrieved from the JGI v1.0 assembly using the sequence found in the paper. The T-box site B, AGGCGATAA, was point mutated to AGGCTATAA, thus inactivating it.

Show sequence

Length: 148

AGGCGATAATGACTTTGCCCGTTTCATGCGGCGATAAACGAACTAATTAGACACCTCCTA
CAGATATAATGGTAATTCAGAATCGTGTGGTTATGTAATTCACAAAAACATTTTAACAAA
ACAGGTTGATTTGAAACTTGTATTATGG

Reference(s)

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