Aniseed - Cis-regulation

Region 'REG00000211'

Cis-regulatory Region

Name

Ci-Mesp -138/39

Short name

n/a

Region ID

REG00000211

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Brad Davidson (2007-11-01)

Annotator

Clara Degos (2010-04-27)

Curator

Delphine Dauga (2010-04-19)

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.

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

Hierarchy of Regulatory Regions

Modification of Ci-Mesp -150bp/39bp by deletion

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

CONS00000207: pCi-Mesp -138/39 pfkh::lacZ

CONS00000630: pCi-Mesp -138/39::GFP

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	AGGCGATAA	[-110 / -102]
3	T-Box	n/a	CGGCGATAA	[-82 / -74]
4	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.

Show sequence

Length: 176

CGACGGATATTTCGCCTTTGAAACTTAAAGGCGATAATGACTTTGCCCGTTTCATGCGGC
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

Christiaen et al. (2008). The transcription/migration interface in heart precursors of Ciona intestinalis. Science 320(5881):1349-52