Aniseed - Cis-regulation

Region 'REG00001406'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C11:4406300-4406535|FoxA

Short name

n/a

Region ID

REG00001406

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Alicia Madgwick (2018-05-28)

Annotator

Marion Gueroult-Bellone (2018-05-28)

Curator

Marion Gueroult-Bellone (2018-05-28)

View position in WashU

Description

This 236bp sequence, located upstream of FoxA (KH.C11.313), has no enhancer activity.

Hierarchy of Regulatory Regions

Modification of FoxAa -1855/173

FoxAa -5600/173 REG00000120 [ regulatory_region (extended_promoter) ]
- FoxAa -2685/173 REG00000121 [ regulatory_region (extended_promoter) ]
  - FoxAa -1855/173 REG00000122 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.C11.313 (FOXA1; FOXA2; FOXA3)

Construct(s) made to test this region

CONS00001428: p.Cirobu.REG.KH2012.C11:4406300-4406535>LacZ

Show in situ data

Overview of functional TF binding sites in this region

4,406,3004,406,535

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

Sequence

Aniseed Coordinates: [4,406,300 / 4,406,535] on scaffold KhC11

This sequence was retrieved using ANISEED Blast tool. Primer used for cloning : Forward : taaaatggagcatcatagtttgg Reverse : ccttaaaagtcttaccattgcactt

Show sequence

Length: 236

taaaatggagcatcatagtttggctccgggaactttgctcgggaataagtctacagatct
gcgggagttcgggtttgattctaccgcaaatatttactctcgatgttgggagcaatcaag
cataggatgtagcaccttaacagaccaatttccttttaaaatttaagtcttgtttttatt
taaaaaaatataaattcaaaaaaagtttaataagtgcaatggtaagacttttaagg

Reference(s)

Madgwick et al. (2019). Evolution of embryonic cis-regulatory landscapes between divergent Phallusia and Ciona ascidians. Dev. Biol. 448(2):71-87