Aniseed - Cis-regulation

Cis-regulatory Region

Ci-Tbx6b -438/-295

n/a

REG00000640

Curated

regulatory_region
(enhancer)

Clara Degos (2010-07-08)

View position in WashU

Description

Coordinates are based on KH transcript model.

This regions was tested in Di Gregorio et al. 2009.

Hierarchy of Regulatory Regions

Ci-Tbx6b -438/-295 REG00000640 [ regulatory_region (enhancer) ]
- Ci-Tbx6b -2339/-13 REG00000853 [ regulatory_region (extended_promoter) ]
  - Ci-Tbx6b -2339/-13 all Macho1 mutated REG00000854 [ regulatory_region (extended_promoter) ]
  - Ci-Tbx6b -827/-13 REG00000855 [ regulatory_region (extended_promoter) ]
    - Ci-Tbx6b -469/-13 REG00000866 [ regulatory_region (extended_promoter) ]
      - Ci-Tbx6b -145/-13 REG00000856 [ regulatory_region (extended_promoter) ]
        
        Ci-Tbx6b -145/-13 T-box mutated REG00000860 [ regulatory_region (extended_promoter) ]
        
        Ci-Tbx6b -145/-13 E-box mutated REG00000861 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

Construct(s) made to test this region

n/a

Overview of functional TF binding sites in this region

27,23927,383

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	bHLH	n/a	CAACTG	[27,239 / 27,244]
2	T-Box	n/a	ACGTAACAA	[27,251 / 27,259]
3	T-Box	n/a	CTTAACACAT	[27,325 / 27,334]
4	bHLH	n/a	CTTAGTTG	[27,374 / 27,383]

Sequence

Aniseed Coordinates: [27,239 / 27,383] on scaffold KhS654

The sequence was found in the publication and blasted against JGI V1.0

Length: 143

CAACTGGTAACAACGTAACAAGCTTGCAAAAGCGAAGGTGACATTGGTAACAACGTACGA
TAACTATTGTCTACTATAACAATAGACTTAACACATAACATATTTAGGAAATGGCTTCAT
ATGGCGGACTGTCAACTTAGTTG

Reference(s)

Erives et al. (2009). Non-homologous structured CRMs from the Ciona genome. J. Comput. Biol. 16(2):369-77

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