Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-DllB -629/-354 GATA mutated

Short name

n/a

Region ID

REG00000914

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Steven Q. Irvine (2011-08-23)

Annotator

Delphine Dauga (2011-08-23)

Curator

Delphine Dauga (2011-08-23)

View position in WashU

Description

Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Modification of Ci-DllB -629/-354 by substitution

Ci-DllB -5000/9 REG00000903 [ regulatory_region (extended_promoter) ]
- Ci-DllB -2400/9 REG00000904 [ regulatory_region (extended_promoter) ]
  - Ci-DllB -1500/9 REG00000905 [ regulatory_region (extended_promoter) ]
    - Ci-DllB -926/9 REG00000902 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.C7.243 (DLX1; DLX2; DLX5)

Construct(s) made to test this region

CONS00000879: pCi-DllB -629/-354 GATA mutated pfkh::LacZ

Show in situ data

Overview of functional TF binding sites in this region

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	SOX	n/a	ATTGTTT	[-524 / -518]
2	ZnF_(C2H2)	n/a	GAGGTGAC	[-405 / -398]
3	SOX	n/a	ACAATGTTT	[-399 / -391]

Sequence

Aniseed Coordinates: [0 / 0] on scaffold KhC7

Sequence from JGI V1.0 found with the sequence in Figure S1. GATA motif mutated was replaced by "-".

Show sequence

Length: 275

GAGTTTTTGAGAGTCGGGCTTGTGTTGGCTGCAGCCTACCGAGAAATGCATTGTTTTTTC
GACGCGCTAC-----GAAGTCATTGTCTTTCGCTCGAGCACGTGCATTGTTTTCATAGCG
CTGCTTTTGTTGTGCACGAGTGTCGTCTCTTCGGCTTTATTCAAGTGAGTTTGTTCTATT
GAGTTTGCATTTTAGATCACTGTAATGTTATGTTGTCGTAGCTGGAGGTGACAATGTTTG
TGTTTGTTTATTATATTCGCATGTTTAACCTCAAG

Reference(s)

Irvine et al. (2011). Expression of the Distalless-B gene in Ciona is regulated by a pan-ectodermal enhancer module. Dev. Biol. 353(2):432-9