Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-SoxB1 -1911/-1541

Short name

n/a

Region ID

REG00000354

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Yukio Ohtsuka (2008-01-01)

Annotator

Émilie Carmona (2010-06-08)

Curator

Patrick Lemaire (2012-03-20)

View position in WashU

Description

This region, placed in front of the pfog basal promoter, drives very weak expression in mesenchyme. This may be background level activity.

Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Modification of Ci-SoxB1 -2021/80 by deletion

Ci-SoxB1 -2021/80 REG00000352 [ no_output ]
- Ci-SoxB1 -505/-215 REG00000353 [ regulatory_region (extended_promoter) ]
- Ci-SoxB1 -1911/-1541 REG00000354 [ inactive_region ]

Regulated gene(s)

KH2012:KH.C1.99 (SOX14; SOX2; SOX21)

Construct(s) made to test this region

CONS00000340: Ci-SoxB1 -1911/-1541 pFOG::LacZ

Show in situ data

Overview of functional TF binding sites in this region

1,489,5871,489,956

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

Sequence

Aniseed Coordinates: [1,489,587 / 1,489,956] on scaffold KhC1

Sequence from JGI V1.0

Show sequence

Length: 370

TGTAGATATCTAAGTGTTCAAGTGTCCGCGAACACTCGACATCCTAGAAAACACGCGCAG
CCAGTTATTAGGTTTCAGCGCGGACAAACCGACAAGTACCACCGTTTTTTTCGTCGCGTT
TCACTCAATTCAGATGCTTACTTTTGCCTACGCTCTGCTCGGTCGGTTTTAGCATGACGA
CGCGCGGCCCCACGACACCCCAGCCTACTTACGACGACTTCTGCCATGCCTGCTTCGGGC
CAAGTTGTGTTTAACGGTTCATTTGCGACGGGAAATCGTGCAACTCAAGACCATCAATGA
ACGAACACAACGTATTCTATATTTGTCGTTAAGTTACACCGACTGTATACCATAGACGCC
TACCACGGAG

Reference(s)

Khoueiry et al. (2010). A cis-regulatory signature in ascidians and flies, independent of transcription factor binding sites. Curr. Biol. 20(9):792-802