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CIS-REGULATION

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  1. Region 'REG00000647'

Cis-regulatory Region

Name

Ci-Mesp -150bp/39bp Lhx3-4/5 mutated

Short name

n/a

Region ID

REG00000647

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)


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 fourth and fifth Lhx3 regulatory motif were mutated.


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

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 Homeobox n/a TAAT [3,537,208 / 3,537,211]
3 T-Box n/a TAGACACCT [3,537,237 / 3,537,240]
4 Homeobox n/a AACTAATTAGAC [3,537,255 / 3,537,266]
5 T-Box n/a CGGCGATAA [3,537,270 / 3,537,278]
6 Homeobox n/a TAAT [3,537,297 / 3,537,300]
7 T-Box n/a AGGCGATAA [3,537,298 / 3,537,306]
8 Ets n/a GGAT [3,537,327 / 3,537,330]
9 Homeobox n/a ATTA [3,537,336 / 3,537,339]

Sequence

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

Lhx3 site were mutated (TAAT and a second site TAAT => TAAC and TCAT).
The sequence was retrieved from the JGI v1.0.assembly using the sequence found in the paper.

Show sequence

Length: 189


CAACAAGTCATTAGCGACGGATATTTCGCCTTTGAAACTTAAAGGCGATAATGACTTTGC
CCGTTTCATGCGGCGATAAACGAACTAATTAGACACCTCCTACAGATATAACGGTCATTC
AGAATCGTGTGGTTATGTAATTCACAAAAACATTTTAACAAAACAGGTTGATTTGAAACT
TGTATTATG