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CIS-REGULATION

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  1. Transcript 'Cisavi.CG.ENS81.R130...' > 
  2. Region 'REG00000665' > 
  3. Transcript 'Boschl.CG.Botznik201...' > 
  4. Transcript 'Haaura.CG.MTP2014.S1...' > 
  5. Region 'REG00000667'

Cis-regulatory Region

Name

Ci-RhoD 228/575

Short name

n/a

Region ID

REG00000667

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Lionel Christiaen (2010-04-25)

Annotator

Clara Degos (2010-04-25)

Curator

Delphine Dauga (2010-05-05)

View position in WashU

Description

Region from +228bp to +575bp of the RhoD/F gene, containing the second exon, but all the regulatory FoxF and Ets1/2 sites were absent.



Be careful, coordinates in the paper are different from ANISEED coordinates. We took the KH transcript model as reference.

Coordinates in the paper : +161/+508

Hierarchy of Regulatory Regions

Modification of Ci-RhoD 228/835 by deletion

Regulated gene(s)

KH2012:KH.C1.129 (RHOA; RHOB; RHOF)

Construct(s) made to test this region

CONS00000645: pCi-RhoD 228/575 bpFOG::LacZ

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

7,848,2287,848,574

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

Sequence

Aniseed Coordinates: [7,848,228 / 7,848,574] on scaffold KhC1

Transcription start site is based on the start of the first exon of the KH transcript model.

Show sequence

Length: 347

TTTTGTATAGTTGTCAGTTTCAATACAAATATAGTGGGATGGGGAAAGATGGGACAACTT
TAACACCTAATATCCAAATATTCTGGTGGTGTTTTAAAGAATAAACAATGGTCTACGCCC
TACGGGGTCGTAAGGATACGGTTTTATGATTCTTTGTATGTTCTTTGTTTACTACCAAAT
GGGACGAGAAAATCGAATGAAAAGGTGTCCCATCTCCCCCCACCATACTATATATGACAG
TCCGTATATATACTAGGGCGAGCAGGATAATTGGATAATATGTGCTAAAGGAATCCCATA
TCTTCCTTAACAGTACTATTTGGTATAGTTTGCTTATACTAAATTTA

Reference(s)

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

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