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CIS-REGULATION

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  1. Region 'REG00001397'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.S605:17549-17833|βγ-crystallin

Short name

n/a

Region ID

REG00001397

Status

Curated

Origin

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

Type of Activity

no_output

Author

n/a ()

Annotator

Marion Gueroult-Bellone (2018-05-25)

Curator

Marion Gueroult-Bellone (2018-05-25)

View position in WashU

Description

This 285bp sequence, located in the intergenic region upstream of βγ-crystallin (S605.3), drives no reporter gene expression in palps or pigment cells. It contains 175bp upstream of the TSS and 110bp downstream. It contains 1 Fox, 1 CREB and 1 Nkx/POU putative binding sites conserved with Ciona savigny. Compared to the -275bp/+110bp enhancer, it lacks 1 Sox and 2 Cdx conserved binding site and is not able to drive gene expression in pigment cells nor palps.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.S605:17540-17833|βγ-crystallin by deletion

Regulated gene(s)

KH2012:KH.S605.3 (CRYBB2; CRYGN; CRYGS)

Construct(s) made to test this region

CONS00001417: p.Cirobu.REG.KH2012.S605:17549-17833>GFP

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

17,54917,833

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox n/a tgtttgt [17,555 / 17,562] This Fox binding site is located on the cis-regulatory region of βγ-crystallin (S605.3). It is conserved with Ciona savigny. Mutation of this Fox binding site inhibits enhancer activity in pigment cells and reduces enhancer activity in palps.
2 bZIP n/a gtcataa [17,617 / 17,624] This CREB binding site is located on the cis-regulatory region of βγ-crystallin (S605.3). It is conserved with Ciona savigny. Mutation of this CREB binding site inhibits enhancer activity in pigment cells.
3 Homeobox n/a tgtta [17,624 / 17,629] This Nkx/POU binding site is located on the cis-regulatory region of βγ-crystallin (S605.3). It is conserved with Ciona savigny.

Sequence

Aniseed Coordinates: [17,549 / 17,833] on scaffold KhS605

This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in Fig2B of Chen et al. 2014.

Show sequence

Length: 285


tgacgttgtttgttttaaaaacccatttattattacgtcataatactttagatggttgtg
tatgttacgtcataatgttaattgttgaataaaaatgaagaaacaaagccatgaagaagg
cggtttgttataaaacattgttgaagggatggaattaattatgttgttaacgtttgaatt
attgatgtaacaaggacgacaagtgagcgcaaatcagatttcgtttactttccttctaac
cctcctaaccactgcttatttcgcattttgtacaatcgaagtttc

Reference(s)

Chen et al. (2014). Dissection of a Ciona regulatory element reveals complexity of cross-species enhancer activity. Dev. Biol. 390(2):261-72

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