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CIS-REGULATION

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  1. Region 'REG00000442'

Cis-regulatory Region

Name

Ci-Rora -678/-421

Short name

n/a

Region ID

REG00000442

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Hélène Auger (2009-04-07)

Annotator

Clara Degos (2009-06-15)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Transcription start site is based on the start of the first exon of the KH transcript model. Construct used to test this sequence is named AS2/3 in the paper. This construct recapitulates the endogenous expression of Ci-Rora.

Hierarchy of Regulatory Regions

Modification of Ci-Rora -4493/-421 by deletion

Regulated gene(s)

KH2012:KH.C8.101 (MUSK; ROR1; ROR2)

Construct(s) made to test this region

CONS00000607: pCi-Rora -678/-422::EGFP

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

2,731,7632,732,019

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox n/a tgttt [2,731,887 / 2,731,891]
2 Fox n/a tgttt [2,731,934 / 2,731,938]
3 Fox n/a tgttt [2,731,949 / 2,731,953]
4 Fox n/a aaaca [2,731,972 / 2,731,976]
5 Fox n/a tgttt [2,731,991 / 2,731,995]

Sequence

Aniseed Coordinates: [2,731,763 / 2,732,019] on scaffold KhC8

Sequence from JGI Version 1 thanks to the primers described in the paper.

Show sequence

Length: 257


AACGAACGACGTAACAATGCACGTTGTTTGCTCAGAAGAGCCGAAACAAGCATTACGGTG
TCGTCGTGTTTGCATTTGGCGTGTTTAATTGATAGCGCCATTCGCGAGTCTAAAGACGCG
AAAGATAATGTTTTGCTTGCTGATGAGAGCGCCGCGATACCCGCCCGCCCTTTATTGACG
TTCTGGAACGCGGTCGCTTCGGGTAGAAGATTGTGACGTAATAAAGCGCAGCGTGCTATC
GCTCGACCATCACTCGT

Reference(s)

Auger et al. (2009). Similar regulatory logic in Ciona intestinalis for two Wnt pathway modulators, ROR and SFRP-1/5. Dev. Biol. 329(2):364-73

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