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CIS-REGULATION

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  1. Transcript 'KH2012:KH.C1.1082.v1...' > 
  2. Region 'REG00000353' > 
  3. Transcript 'KH2012:KH.L172.2.v1....' > 
  4. > 
  5. Region 'REG00000645'
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Cis-regulatory Region

Name

Ci-Mesp -150bp/39bp Lhx3-2 mutated

Short name

n/a

Region ID

REG00000645

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Lionel Christiaen (2010-04-15)

Annotator

Clara Degos (2010-07-12)

Curator

Delphine Dauga (2010-04-20)

View position in WashU

Description

This region is the Mesp190 minimal cis regulatory element. It contains Tbx6b/c, Lhx3 and Ets1/2 domains. Inactivation of Tbx6b/c or Lhx3 domains can drive to a reduced expression of Ci-Mesp or ectopic expression.

In this construct, the second Lhx3 regulatory motif was mutated.


JGI transcript model was taken as reference for the region s coordinates.

Hierarchy of Regulatory Regions

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

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000615: pCi-Mesp -150bp/39bp Lhx3-2 mutated::LacZ

Show in situ data
Overview of functional TF binding sites in this region

3,537,1603,537,348

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 T-Box n/a ATTTCGCC [-128 / -121]
2 T-Box n/a AGGCGA--- [-108 / -100]
3 Homeobox n/a TAAT [3,537,208 / 3,537,211]
4 Homeobox n/a TAAT [3,537,231 / 3,537,234]
5 Homeobox n/a TAAT [3,537,237 / 3,537,240]
6 T-Box n/a TAGACACCT [3,537,237 / 3,537,240]
7 Homeobox n/a AACTAATTAGAC [3,537,255 / 3,537,266]
8 T-Box n/a CGGCGATAA [3,537,270 / 3,537,278]
9 Ets n/a GGAT [3,537,327 / 3,537,330]
10 Homeobox n/a ATTA [3,537,336 / 3,537,339]

Sequence

Aniseed Coordinates: [3,537,160 / 3,537,348] on scaffold KhC3

Lhx3 site was mutated (TAAT=>GACT) .
The sequence was retrieved from the JGI v1.0 assembly using the sequence found in the paper.

Show sequence

Length: 189


CAACAAGTCATTAGCGACGGATATTTCGCCTTTGAAACTTAAAGGCGAGACTGACTTTGC
CCGTTTCATGCGGCGATAAACGAACTAATTAGACACCTCCTACAGATATAATGGTAATTC
AGAATCGTGTGGTTATGTAATTCACAAAAACATTTTAACAAAACAGGTTGATTTGAAACT
TGTATTATG

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. (2009). Spatio-temporal intersection of Lhx3 and Tbx6 defines the cardiac field through synergistic activation of Mesp. Dev. Biol. 328(2):552-60

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