Login
Help

CIS-REGULATION

Submit your Data

  1. Region 'REG00000349'

Cis-regulatory Region

Name

Ci-RAR -4608/-4372

Short name

n/a

Region ID

REG00000349

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Yukio Ohtsuka (2007-12-28)

Annotator

Émilie Carmona (2010-06-09)

Curator

Patrick Lemaire (2012-03-20)

View position in WashU

Description

This region placed in front of pfog or pbra basal promoters, drives significant expression in distinct territories:

Ci-RAR-pBra-LacZ: expression in notochord and mesenchyme.

Ci-RAR-pFOG-LacZ: expression in brain and mesenchyme.
Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Modification of Ci-RAR -4739/312 by deletion

Regulated gene(s)

KH2012:KH.C9.580 (RARA; RARB; RARG)

Construct(s) made to test this region

CONS00000335: Ci-RAR -4608/-4372 pBra::LacZ

CONS00000336: Ci-RAR -4608/-4372 pFOG::LacZ

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

3,693,1623,693,397

Motif Name Binding Factor(s) Sequence Position in Region Comment

Sequence

Aniseed Coordinates: [3,693,162 / 3,693,397] on scaffold KhC9

sequence from JGI V1.0

Show sequence

Length: 236

CAGCTCTGTATCTTCCCCGCCCAAAATCCTCGTTCTTAAGAACGAGTGCTTCCACATAAA
AACACATTTTCTCCTGCTCGGAATCCGATTACCGTGAATCTCGCCCGTATAAGCACGCCA
ATTTAAACGGAGTCGACGGGACGACGAATAGCAGGCTTGTAATTAAATTAATTCCTGGCT
AAATCGCATATGTCGGTGCCGGATTAACGTATCTATGATACATTCGTCGCAACCGC

Reference(s)

Khoueiry et al. (2010). A cis-regulatory signature in ascidians and flies, independent of transcription factor binding sites. Curr. Biol. 20(9):792-802

Back to Top