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CIS-REGULATION

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  1. Transcript 'KH2012:KH.C11.210.v2...' > 
  2. Region 'REG00001180' > 
  3. Transcript 'Haaura.CG.MTP2014.S6...' > 
  4. Transcript 'KH2012:KH.C1.1022.v1...' > 
  5. Region 'REG00000655'

Cis-regulatory Region

Name

Ci-RhoD -2606/1049

Short name

n/a

Region ID

REG00000655

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

This region drives RhoD expression in notochord, 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 : -2672/+982

Hierarchy of Regulatory Regions

Modification of Ci-RhoD -3406/1048 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000625: pCi-RhoD -2606/1049::LacZ

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

7,847,7547,851,407

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 / 7,851,407] on scaffold KhC1

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

Show sequence

Length: 3,654


TTTCAATTTAAAAACTTTACAGCGGTTTATCAAATTTATTAGAATGAAGAATTTCAAATG
TGTAGAATTGTATTGAGATATCTAAGAGAGCAACGTAAACATAAAGTAAACAGATAACAC
CCAACTGTCGTTCACCAGAAATGCAAACACTCAGACCGCGTTCCATATATAGTATGGTGG
GGGAGATGGGACACTTTTTCATTCTATTTTCTCGTTCCATTTAGTAGTAAACAAAGAACA
CTTGAAGAAATATAAAAACCACATTCCCACAATTCCCATAGACCGTTATTGTTAATTGTT
TCACAATCAAAATATTTGGATAATATGTGCTAAAGGCGTCCTATCTTCCCCCACAGTACT
ATAGTAGGGTGGGGAAGTTGGGCAACCTTTTTATTCCACTTTATCGCCCCATTTGGTAGT
AAACAAAGAACAGTCAAAGAATCGTTAAACCGTATCCTTACCGCTGGTAATTGTTCAAAA
CACGATCAAGATATTTAAATACTATATACGTTCTAATGTTGTTTCGTTTTCTCCACCCTA
CTATATGTTATTAAAATTTGATTCTTCCTGTCTTTTCTATCATGAAGCAATATCATTGAT
GTTTATACTAACTCCAAATGTTCATGTATATGTATACATTCATATGTTTTGCATATTTTT
ATATACAGAACCAATGTTAAATATACTGATATATATTTACTAATACATACCTATATAACA
GTTATATAAACACCTATATACCCACTGTACCCAATAAATAATATATACATATACAGCATA
AGTCTATTACACCACCTTTTAACAAATACACATATATTCGTCTTAAGCCTGTCTTTACCA
ATAATACAGAGTACCCTTAAAACATGTTATCGTGTACCTCATCCTATCTCACTAGACGAG
ACATTTTACAGTAGAAACAAAATAAGCTCTGATTGTGTTTCGGTTGCGACGAATGTTGCT
ACACCATGGTCTATTAATAAAGACGTGTCGGCTGTATAATAATGTAGTCTACACCACGGT
CAATTAAATACGCCAAGTATGCTTATATAATACATTGAGTAGGACAGTGGGCCATGTATA
CACAAATATATGGACTATTTATAAGTGGGTTAATGTGTGTATGTTGTTGCTAGTATATAG
CTATTAGCAGTGTGATAAACGTATACAAGAATATTGCATCTGCATTCGCCTTCCAGTCTG
TTCCTGGATTCTTGTTTATGTTAAACAGTTCTACAAACCTAAGGCACACAGCGCGTGCGT
TCGTGCTGGTGTGTATAAAAACACGCCCTCATTGCGTAAACGCTTATTGACTGACAAGAC
CACAGTTTCCTGTGAGTTGCGCGAGTCTATATACTGCGGCAAAAGACGTTAGAAGGCTGT
GACCTGCTGGAAAGCCTTTGCCAGCTAACCTACCGTATCGTATTTAGCGGCTAGTCTTTC
AAGTCAAGTTGTACGAATCGTTTTAGTTGTATTCATACGTCGCGAGCGGAGTTAATTATA
GTGACAGATTTTTGAACTAAATGAACGTAGTTATAAATATTGTGAGTGAAATTCAAGCAG
TAAGTGTATATAGTTAGAAGCATATGAAGTCATGGTGTATACCATTTCGCAAAGTGTTAA
AGAGGACAATTCAATACAGTCAACACGGTGTATAAAGTGCCGAAGTATGGGTTTACACTA
TTTTAATATGGTTTGTGTGAGTTGTTGTACATTTAATTTTTGAAATCAAGCTCACTGTAC
AGTTTGACGACTTGCGAATAGGTCGAACATGATTACATTTTAGCCAGAATTAGTTATGAG
TTTCATGGTTAATTTTACTATTTCCTAAACGCTGTCAATTTACTGTGTATTATTAGATCT
ACTAGCAATAAAGTAATGCATTGCACGAGGGTTTAGTAACAAAAGCATGTTAATAACCGG
GTTATAAATAACTCAGAACGTTTCGAAAATCGACATAGTGACTGGCCTACTATATCACCG
AAGACGTAATAGACTATATATGCATAACACGCACATGCTTTGCGCCATGTATATATATGA
TATTTGAATATAGATTTGATCACGCCGAAAGCTGTCCAGACTAAGAATGCTTACAAAGGT
AAGTTTCAGACAGTTCTATAAAGTTACACCAGCGTTATACAAAGGATCTGTATGGCAACG
TCAGACAATTTGCGTAACAGGAAGCAGAACTACTTGTTTCTAACGTCACAGTCCCCTAGC
GGCCTAGTGAATAACGGTGGCGAAAGATAGATAGTAAGTTTTTTTTATTGTTTTATGTCC
TTGGAGAGGTAAATAAATTAACTAGGAGATGATTGAAAAAACATTATTACGTCCACAATA
TGAGTATAGTATAGCATTGTAAGGTTGTATGTTTGAGTAAGACTATCTAAAAAAGATAAA
AAAGAGATGAAGTCTAGGATTTGTTTTTCTTTTTACAGCATTGTCGTTCAATTACCGCGT
ATATATGTATTTGTATTTTTAAAATTTAGCGTATATTTAGCTGCATTTAAAGATAAAATG
GGCTACTAAAGAATCCTCCCCAACTAACTGCTAGTCTAAATAGTATTCTTCACTACTGTA
ACAAAGTTGCATTTCTTCTTTTAGTGACTGGCATCACTTCTTAGAATGTAGTTGCTAATT
TTAACTTGTAAAGCCAAAACTATACACAAACAATGGAAAGGATACCCAATGACGTCAAAG
GTGCTTTCCCCGAGCAGCAACCCAAAATTAAATGTGTTATAGTTGGGGATGGTGGATGCG
GTAAAACTTCAATGCTGGTTGTATATACGGAAGGCGAATTCCCTGAAGTAAGTTTACGTT
TAATTATAAACTTTTTTGTATAGTTGTCAGTTTCAATACAAATATAGTGGGATGGGGAAA
GATGGGACAACTTTAACACCTAATATCCAAATATTCTGGTGGTGTTTTAAAGAATAAACA
ATGGTCTACGCCCTACGGGGTCGTAAGGATACGGTTTTATGATTCTTTGTATGTTCTTTG
TTTACTACCAAATGGGACGAGAAAATCGAATGAAAAGGTGTCCCATCTCCCCCCACCATA
CTATATATGACAGTCCGTATATATACTAGGGCGAGCAGGATAATTGGATAATATGTGCTA
AAGGAATCCCATATCTTCCTTAACAGTACTATTTGGTATAGTTTGCTTATACTAAATTTA
ATTAGCAACCCGCTGTTGTTCAAAGGTGTACACGCCCACGGTGTTTGAGAATTACAGCAG
AGAGGTGGAATTAAATCGAAAGAAGGCGGTGCTAACATTGTGGGATACGGCGGGTATATA
TTAGTACATACGTGTTTATGCAAGACATCGTAGGCTTGTTGACTTAGTTTCGGTTAGCAT
GGAAGTGTAGTCTATGTTCTACGTGGGTTATGTTCTTGTCGAGGATCTGGGATTAGGGCT
AAATTCAGCCTATTATTACCACAACATTCAGACTGCTTTTGTAGGTCCAAATGTAACATA
TGACTAGTGTGTTCTGATGTGTGTTTATAATACAATAAACTAGCGCAAACTGTTTGTCCC
ATTATGTTTAGTCATATAGGTCATATGAGAGTAAATGAAGTGTAAACCAAATGTTTACTT
GTACCAGGTCAGGAAGATTATGACCGGCTTCGACCTCTCTCTTACAACAACGCA

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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