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CIS-REGULATION

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  1. Region 'REG00000654'

Cis-regulatory Region

Name

Ci-RhoD -1299/83

Short name

n/a

Region ID

REG00000654

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Lionel Christiaen (2010-04-25)

Annotator

Clara Degos (2010-04-25)

Curator

Delphine Dauga (2010-05-03)

View position in WashU

Description

The complete cis regulatory region drives RhoD expression in notochord, TVC, muscles and mesenchyme. Here, the absence of the regulatory motifs (FoxF and Ets1/2) abolish the expression in notochord, and TVC.



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

Coordinates in the paper : -1365/+17

Hierarchy of Regulatory Regions

Modification of Ci-RhoD -2606/82 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000624: pCi-RhoD -1299/83::LacZ

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

7,848,7207,850,101

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

Sequence

Aniseed Coordinates: [7,848,720 / 7,850,101] on scaffold KhC1

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

Show sequence

Length: 1,382

TTGACTGACAAGACCACAGTTTCCTGTGAGTTGCGCGAGTCTATATACTGCGGCAAAAGA
CGTTAGAAGGCTGTGACCTGCTGGAAAGCCTTTGCCAGCTAACCTACCGTATCGTATTTA
GCGGCTAGTCTTTCAAGTCAAGTTGTACGAATCGTTTTAGTTGTATTCATACGTCGCGAG
CGGAGTTAATTATAGTGACAGATTTTTGAACTAAATGAACGTAGTTATAAATATTGTGAG
TGAAATTCAAGCAGTAAGTGTATATAGTTAGAAGCATATGAAGTCATGGTGTATACCATT
TCGCAAAGTGTTAAAGAGGACAATTCAATACAGTCAACACGGTGTATAAAGTGCCGAAGT
ATGGGTTTACACTATTTTAATATGGTTTGTGTGAGTTGTTGTACATTTAATTTTTGAAAT
CAAGCTCACTGTACAGTTTGACGACTTGCGAATAGGTCGAACATGATTACATTTTAGCCA
GAATTAGTTATGAGTTTCATGGTTAATTTTACTATTTCCTAAACGCTGTCAATTTACTGT
GTATTATTAGATCTACTAGCAATAAAGTAATGCATTGCACGAGGGTTTAGTAACAAAAGC
ATGTTAATAACCGGGTTATAAATAACTCAGAACGTTTCGAAAATCGACATAGTGACTGGC
CTACTATATCACCGAAGACGTAATAGACTATATATGCATAACACGCACATGCTTTGCGCC
ATGTATATATATGATATTTGAATATAGATTTGATCACGCCGAAAGCTGTCCAGACTAAGA
ATGCTTACAAAGGTAAGTTTCAGACAGTTCTATAAAGTTACACCAGCGTTATACAAAGGA
TCTGTATGGCAACGTCAGACAATTTGCGTAACAGGAAGCAGAACTACTTGTTTCTAACGT
CACAGTCCCCTAGCGGCCTAGTGAATAACGGTGGCGAAAGATAGATAGTAAGTTTTTTTT
ATTGTTTTATGTCCTTGGAGAGGTAAATAAATTAACTAGGAGATGATTGAAAAAACATTA
TTACGTCCACAATATGAGTATAGTATAGCATTGTAAGGTTGTATGTTTGAGTAAGACTAT
CTAAAAAAGATAAAAAAGAGATGAAGTCTAGGATTTGTTTTTCTTTTTACAGCATTGTCG
TTCAATTACCGCGTATATATGTATTTGTATTTTTAAAATTTAGCGTATATTTAGCTGCAT
TTAAAGATAAAATGGGCTACTAAAGAATCCTCCCCAACTAACTGCTAGTCTAAATAGTAT
TCTTCACTACTGTAACAAAGTTGCATTTCTTCTTTTAGTGACTGGCATCACTTCTTAGAA
TGTAGTTGCTAATTTTAACTTGTAAAGCCAAAACTATACACAAACAATGGAAAGGATACC
CA

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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