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CIS-REGULATION

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  1. Region 'REG00001321' > 
  2. Clone 'cign022c07' > 
  3. Clone 'cicl057j14' > 
  4. Clone 'AHC0AAA50YA21' > 
  5. Region 'REG00001353'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C12:712425-714190|CbpD,CbpE,CbpN

Short name

n/a

Region ID

REG00001353

Status

Curated

Origin

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

Type of Activity

regulatory_region
(complex_region)

Author

Diana S. José-Edwards (2018-05-08)

Annotator

Marion Gueroult-Bellone (2018-05-08)

Curator

Marion Gueroult-Bellone (2018-05-08)

View position in WashU

Description

This 1769bp sequence, located in the downstream region of KH.C12.16, drives reporter gene expression in notochord. It contains a cluster of 3 Fox and 1 Myb#3 putative binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C12:711845-714190|CbpD,CbpE,CbpN by deletion

Regulated gene(s)

KH2012:KH.C12.16 (CPD; CPE; CPN1)

Construct(s) made to test this region

CONS00001373: p.Cirobu.REG.KH2012.C12:712425-714190>LacZ

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

712,425714,190

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox n/a acaaaca [712,452 / 712,459] This is one of the 3 Fox binding sites located in the notochord-active enhancer of KH.C12.16.
2 Fox n/a acaaata [712,465 / 712,472] This is one of the 3 Fox binding sites located in the notochord-active enhancer of KH.C12.16.
3 Fox n/a acaata [712,480 / 712,486] This is one of the 3 Fox binding sites located in the notochord-active enhancer of KH.C12.16.
4 Helix Turn Helix / Tryptophane clusters n/a ccgttg [712,519 / 712,525] This Myb#3 binding site is located in the notochord-active enhancer of KH.C12.16. Mutation or deletion of this binding site inhibits enhancer activity in the notochord.

Sequence

Aniseed Coordinates: [712,425 / 714,190] on scaffold KhC12

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1.e and TableS5 of Jose-Edwards et al. 2015.

Show sequence

Length: 1,766


tcacatatatgcgttgtgacgtcatatacaaacaacaagaacaaatagtgacgtaacaat
acaaatatcgagtaaattcgacgtcacggttgaaccgttgtgtggataagttaaccatga
cgtcaccggtataaaggtaatgcggtgacgtcacagataagatgaaagtcttcaacgcga
atataaaacttctggcatcaatttccggacgacgccattccaactcccgcgggacgtcct
atgtgacgtcatacaccactatttaaccgttagcggtgaagggaagattgtaacttgttt
tatcctcgcgtggcaggccaacgacagtctttatagcacgaatgttcggtttcgtacacg
tcatgcctgcttacgaattacaacgtatatgtaactttgtgggtaataaaaagtctgttt
tctcttttttgatttttttttttggttgtggaataaatgaatgtgcacgtagtgaaaacg
tgattaccaggtggaagttgcagctttccgtgattaatccccttgtcatccaagttggga
gtggcacggaattcacacaacccctcatcgataacaaatcacttactgtattgtgacgtg
gcacaacatacaatagaatataagcacgtgacttttagcccatcacaaaaatattcagga
tattttataaaatacacacgcgactaaatgtgcggtttatattcggtaaaggccgttctt
tacacacacgctatttttaggcgacaccaaaatagaatgtcgtttgtcgttatttcctgt
cgctctttcgtcaatttttttttttttaaaaaaaaaaaataacgaaaagggggggaaaaa
attcccccgtagctataacgacgaatggagataatataatacagattcgcgttgtcacga
tctattcaagcatttcttcgtaagtaacaaaagtcatatttaagttgtattcgattaaac
tattacagtgtggcataaagtatggtgtgaaatgctgcaacctttttggagcgattataa
taagttatacgaaactatcagcattgctacataagataatgctgtagtagcattgcgcaa
acgccagcaaatacatcaaacaaacctcagtgtaggtaagttgggtttgggtgaagataa
acgttcaaacatatacgatggttaagtgtggagggttggtcacgaatggatggaaatacg
tgttgcttgctcggggttacggggtgtgccgcattccacgcttacccggcaaatacaaaa
cacttccctagtttatataacaacatagcgtgtcagtgtcactcttaacattgaagagat
gcctagaatttcgagtccgcagatgcttgaatgctatcgcaagaggcgtggggtttaagg
ttcaaaacccgtgcaggtgacaacaaactaatttatctgtcacgtgttggtaaatgaggt
tgaaggctaagggttaaccgggttcgaacctatctgaggtaaacaaacagactcaacgtc
acatagagaagaaaattaattatttgtgacgtcaaggggacttgggcaatattaaacatt
tctagtggtacttagcaacacttgtaagctgaacaaaccacggtcggaaatatgcgtaat
atgggaagctgataatggtcgtttaattaagggttaatattcgctgaattttgtttattc
aaaagatagttttgtgacgatagaatcaacgagcgctttcagtctgtgacgtaacaaacg
gtcattattacgatatgattgttgca

Reference(s)

José-Edwards et al. (2015). Brachyury, Foxa2 and the cis-Regulatory Origins of the Notochord. PLoS Genet. 11(12):e1005730

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