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  1. Region 'REG00001354'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C12:712628-713987|CbpD,CbpE,CbpN

Short name

n/a

Region ID

REG00001354

Status

Curated

Origin

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

Type of Activity

no_output

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 1353bp sequence, located in the downstream region of KH.C12.16, drives no reporter gene expression in notochord. Compared to the notochord-active larger enhancer, it lacks a cluster of 3 Fox and 1 Myb#3 putative binding sites.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C12:712425-714190|CbpD,CbpE,CbpN by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00001374: p.Cirobu.REG.KH2012.C12:712628-713987>LacZ

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

712,628713,987

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

Sequence

Aniseed Coordinates: [712,628 / 713,987] 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: 1,360

tccggacgacgccattccaactcccgcgggacgtcctatgtgacgtcatacaccactatt
taaccgttagcggtgaagggaagattgtaacttgttttatcctcgcgtggcaggccaacg
acagtctttatagcacgaatgttcggtttcgtacacgtcatgcctgcttacgaattacaa
cgtatatgtaactttgtgggtaataaaaagtctgttttctcttttttgattttttttttt
ggttgtggaataaatgaatgtgcacgtagtgaaaacgtgattaccaggtggaagttgcag
ctttccgtgattaatccccttgtcatccaagttgggagtggcacggaattcacacaaccc
ctcatcgataacaaatcacttactgtattgtgacgtggcacaacatacaatagaatataa
gcacgtgacttttagcccatcacaaaaatattcaggatattttataaaatacacacgcga
ctaaatgtgcggtttatattcggtaaaggccgttctttacacacacgctatttttaggcg
acaccaaaatagaatgtcgtttgtcgttatttcctgtcgctctttcgtcaattttttttt
ttttaaaaaaaaaaaataacgaaaagggggggaaaaaattcccccgtagctataacgacg
aatggagataatataatacagattcgcgttgtcacgatctattcaagcatttcttcgtaa
gtaacaaaagtcatatttaagttgtattcgattaaactattacagtgtggcataaagtat
ggtgtgaaatgctgcaacctttttggagcgattataataagttatacgaaactatcagca
ttgctacataagataatgctgtagtagcattgcgcaaacgccagcaaatacatcaaacaa
acctcagtgtaggtaagttgggtttgggtgaagataaacgttcaaacatatacgatggtt
aagtgtggagggttggtcacgaatggatggaaatacgtgttgcttgctcggggttacggg
gtgtgccgcattccacgcttacccggcaaatacaaaacacttccctagtttatataacaa
catagcgtgtcagtgtcactcttaacattgaagagatgcctagaatttcgagtccgcaga
tgcttgaatgctatcgcaagaggcgtggggtttaaggttcaaaacccgtgcaggtgacaa
caaactaatttatctgtcacgtgttggtaaatgaggttgaaggctaagggttaaccgggt
tcgaacctatctgaggtaaacaaacagactcaacgtcacatagagaagaaaattaattat
ttgtgacgtcaaggggacttgggcaatattaaacatttct

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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