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CIS-REGULATION

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  1. Region 'REG00000659'

Cis-regulatory Region

Name

Ci-RhoD -441/1049

Short name

n/a

Region ID

REG00000659

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 (2010-05-04)

View position in WashU

Description

This region drives RhoD expression in TVC, muscles and mesenchyme.



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

Coordinates in the paper : -507/+9822

Hierarchy of Regulatory Regions

Modification of Ci-RhoD -645/1049 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000629: pCi-RhoD -441/1049::LacZ

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

7,847,7547,849,242

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox n/a TGTTTGA [616 / 622]
2 Fox n/a TGTTTAT [707 / 713]
3 Ets n/a TGGAAG [754 / 759]
4 Ets n/a AGGATC [796 / 801]
5 Fox n/a TGTTTAT [896 / 902]
6 Fox n/a TGTTTGT [925 / 931]

Sequence

Aniseed Coordinates: [7,847,754 / 7,849,242] on scaffold KhC1

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

Show sequence

Length: 1,489


CAATTTGCGTAACAGGAAGCAGAACTACTTGTTTCTAACGTCACAGTCCCCTAGCGGCCT
AGTGAATAACGGTGGCGAAAGATAGATAGTAAGTTTTTTTTATTGTTTTATGTCCTTGGA
GAGGTAAATAAATTAACTAGGAGATGATTGAAAAAACATTATTACGTCCACAATATGAGT
ATAGTATAGCATTGTAAGGTTGTATGTTTGAGTAAGACTATCTAAAAAAGATAAAAAAGA
GATGAAGTCTAGGATTTGTTTTTCTTTTTACAGCATTGTCGTTCAATTACCGCGTATATA
TGTATTTGTATTTTTAAAATTTAGCGTATATTTAGCTGCATTTAAAGATAAAATGGGCTA
CTAAAGAATCCTCCCCAACTAACTGCTAGTCTAAATAGTATTCTTCACTACTGTAACAAA
GTTGCATTTCTTCTTTTAGTGACTGGCATCACTTCTTAGAATGTAGTTGCTAATTTTAAC
TTGTAAAGCCAAAACTATACACAAACAATGGAAAGGATACCCAATGACGTCAAAGGTGCT
TTCCCCGAGCAGCAACCCAAAATTAAATGTGTTATAGTTGGGGATGGTGGATGCGGTAAA
ACTTCAATGCTGGTTGTATATACGGAAGGCGAATTCCCTGAAGTAAGTTTACGTTTAATT
ATAAACTTTTTTGTATAGTTGTCAGTTTCAATACAAATATAGTGGGATGGGGAAAGATGG
GACAACTTTAACACCTAATATCCAAATATTCTGGTGGTGTTTTAAAGAATAAACAATGGT
CTACGCCCTACGGGGTCGTAAGGATACGGTTTTATGATTCTTTGTATGTTCTTTGTTTAC
TACCAAATGGGACGAGAAAATCGAATGAAAAGGTGTCCCATCTCCCCCCACCATACTATA
TATGACAGTCCGTATATATACTAGGGCGAGCAGGATAATTGGATAATATGTGCTAAAGGA
ATCCCATATCTTCCTTAACAGTACTATTTGGTATAGTTTGCTTATACTAAATTTAATTAG
CAACCCGCTGTTGTTCAAAGGTGTACACGCCCACGGTGTTTGAGAATTACAGCAGAGAGG
TGGAATTAAATCGAAAGAAGGCGGTGCTAACATTGTGGGATACGGCGGGTATATATTAGT
ACATACGTGTTTATGCAAGACATCGTAGGCTTGTTGACTTAGTTTCGGTTAGCATGGAAG
TGTAGTCTATGTTCTACGTGGGTTATGTTCTTGTCGAGGATCTGGGATTAGGGCTAAATT
CAGCCTATTATTACCACAACATTCAGACTGCTTTTGTAGGTCCAAATGTAACATATGACT
AGTGTGTTCTGATGTGTGTTTATAATACAATAAACTAGCGCAAACTGTTTGTCCCATTAT
GTTTAGTCATATAGGTCATATGAGAGTAAATGAAGTGTAAACCAAATGTTTACTTGTACC
AGGTCAGGAAGATTATGACCGGCTTCGACCTCTCTCTTACAACAACGCA

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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