Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-FCol1 -2200/-1800

Short name

n/a

Region ID

REG00000864

Status

Not Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Jamie E. Kugler (2010-07-09)

Annotator

Clara Degos (2010-07-22)

Curator

Clara Degos (2010-07-09)

View position in WashU

Description

The distal region (400bp) of the region of 2.2kb upstream of Ci-FCol1. This region contains two E-boxes sites.

Aniseed coordinates are based on the JGI transcript.

Hierarchy of Regulatory Regions

Modification of Ci-FCol1 -2200/1 by deletion

Ci-FCol1 -2200/1 REG00000863 [ regulatory_region (extended_promoter) ]
- Ci-FCol1 -2200/-1800 REG00000864 [ regulatory_region (extended_promoter) ]
- Ci-FCol1 -229/1 REG00000865 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.S654.3 (TBX2; TBX4; TBX6)

Construct(s) made to test this region

CONS00000825: pCi-FCol1 -2200/-1800 pFoxAa::LacZ

CONS00000827: pCi-FCol1 -2200/-1800::LacZ

Show in situ data

Overview of functional TF binding sites in this region

1,119,0411,119,440

	Motif Name	Binding Factor(s)	Sequence	Position in Region	Comment
1	bHLH	n/a	CAAATG	[-2,184 / -2,179]
2	bHLH	n/a	GTCCAC	[-2,076 / -2,071]

Sequence

Aniseed Coordinates: [1,119,041 / 1,119,440] on scaffold KhC7

Show sequence

Length: 400

GTTGATAAATTGCCATCAAATGCTTGCGGGTTTATGACAGCCGCCAATTCAGGCCAAGGC
ATGTCGAACAACGACTACGAATGTAGCCCGTCAGATGAAACAACAAAGTCTGCCGCAGTA
GGTGGTCCACATCGTTAATTTCGCGTTGTACTTTATAACAACTACCAAATAAATTTGATT
CGAGCCCTAAGATATACAAATACGTAGCAGGATCCCCAATCATTTTTAATCTTGTATAAC
ATTTCTATTTTAAAATATGAATAGACAATATGATGTCACAATATAAATACAAACAAAAAT
TCCAGAACTTCGTTTATGACAAAACTGCATTTCATATTTTGAATTGAACTGAAAACACAA
GCAAATTGGTCGTATTGCGGCCGTTTTTTTTGTTCAATTT

Reference(s)

Kugler et al. (2010). Temporal regulation of the muscle gene cascade by Macho1 and Tbx6 transcription factors in Ciona intestinalis. J. Cell. Sci. 123(Pt 14):2453-63