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CIS-REGULATION

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  1. Region 'REG00000248'

Cis-regulatory Region

Name

Otx -1472/-1417 delta -1464/-1436

Short name

n/a

Region ID

REG00000248

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Vincent Bertrand (2007-11-16)

Annotator

Clara Degos (2010-07-23)

Curator

Delphine Dauga (2010-03-01)

View position in WashU

Description

This regulatory region is segmented in Four parts:
Region -1541/-1417 mainly drives expression during cleavage stages in a- and b-line neural precursors as a result of induction by FGF9/16/20
Region -1417/-1133 drives expression in A-line cells from the 64-cell stage onwards
Region -706/-271 drives cleavage stage expression in b- and B-line cells
the first intron drives later expression in the palps and anterior ventral epidermis.


Transcription start site is based on the start of the first exon of the JGI transcript model.

Hierarchy of Regulatory Regions

Modification of Otx -1472/-1417 by deletion

Regulated gene(s)

KH2012:KH.C4.84 (CRX; OTX1; OTX2)

Construct(s) made to test this region

CONS00000242: pOtx -1472/-1417 delta ETS pBra::NLSLacZ

Show in situ data
Overview of functional TF binding sites in this region

4,315,5934,315,647

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(GATA) n/a TTATCT [-4,315,626 / -4,315,621]
2 ZnF_(GATA) n/a ATATCT [-4,315,588 / -4,315,583]
3 ZnF_(GATA) n/a AGATAG [-4,315,581 / -4,315,576]

Sequence

Aniseed Coordinates: [4,315,593 / 4,315,647] on scaffold KhC4

JGI v1.0 sequence, in which the ETS sites containing segment has been deleted.

Show sequence

Length: 55


CGTTATCTCT----------------------------CAATATCTAAGATAGGA

Reference(s)

Bertrand et al. (2003). Neural tissue in ascidian embryos is induced by FGF9/16/20, acting via a combination of maternal GATA and Ets transcription factors. Cell 115(5):615-27

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