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CIS-REGULATION

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  1. Region 'REG00001195' > 
  2. Region 'REG00001107' > 
  3. Region 'REG00000687' > 
  4. Transcript 'Boschl.CG.Botznik201...' > 
  5. Region 'REG00001108'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C5:4201966-4204077/cdc25_µGATA

Short name

Ci-cdc25(-2109/+3) µGATA

Region ID

REG00001108

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Yosuke Ogura (2017-01-30)

Annotator

Marion Gueroult-Bellone (2017-01-30)

Curator

Delphine Dauga (2017-05-30)

View position in WashU

Description

This sequence contains the cis-regulatory module CRM2 and CRM1 (as defined by Ogura and Sasakura, 2016). In this variant, both GATA binding sites of CRM1 were mutated (replaced by AATA).

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C5:4201966-4204077 by substitution

Regulated gene(s)

KH2012:KH.C5.12 (CDC25A; CDC25B; CDC25C)

Construct(s) made to test this region

CONS00001076: pSP.Cirobu.REG.KH2012.C5:4201966-4204077(µGATA):prCirobu.bpForkhead>Kaede

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

4,201,9664,204,077

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 SOX n/a ttcaacg [4,203,985 / 4,203,992] This binding site is one of the 3 Sox sites of the cis-regulatory module 2 of Cdc25 (KH.C5.12). When all of them are deleted, this CRM is no longer able to drive expression in the epidermis.
2 AP2/ERF n/a gtccacggc [4,204,012 / 4,204,021] This binding site is one of the two AP-2 sites of he cis-regulatory module 2 of Cdc25 (KH.C5.12). The mutation or deletion of one of them slighlty decrease the epidermal enhancer activity. When both of them are mutated or deleted, the epidermal activity of the enhancer is reduced by a half.
3 SOX n/a cattgtt [4,204,030 / 4,204,037] This binding site is one of the 3 Sox sites of the cis-regulatory module 2 of Cdc25 (KH.C5.12). When all of them are deleted, this CRM is no longer able to drive expression in the epidermis.
4 AP2/ERF n/a caggtgggc [4,204,053 / 4,204,062] This binding site is one of the two AP-2 sites of he cis-regulatory module 2 of Cdc25 (KH.C5.12). The mutation or deletion of one of them slighlty decrease the epidermal enhancer activity. When both of them are mutated or deleted, the epidermal activity of the enhancer is reduced by a half.
5 SOX n/a cattgtt [4,204,062 / 4,204,069] This binding site is one of the 3 Sox sites of the cis-regulatory module 2 of Cdc25 (KH.C5.12). When all of them are deleted, this CRM is no longer able to drive expression in the epidermis.

Sequence

Aniseed Coordinates: [4,201,966 / 4,204,077] on scaffold KhC5

Both GATA binding sites (resp. located at 111 and 90 bp from the 5' of the above sequence) are mutated : GATA was replaced by AATA.

Show sequence

Length: 2,112


catattaaagacaggtgctgaagattgaccacaagtgtataacacccgctagcttacaac
agagtaagctctcaagataccgtatgtctaaaacgcaattagctacttcggatgtcaaat
aacctgaaattctgcaaaagaaaacagtttgcttactcgatcggcgaagatactctgcta
atccacgagatatcggcttatgacaaacgcccataagttacatcgccgatatgacccaat
tccatcggcaatacgaccactatgttattgcggtctttactaagtcataatccaacttta
taacgcttgcgtcgcagaacaactgttgcaataagctccaatggccacaccatatgttac
gctcgaggtataggaggccttttgagtatatacccgacattctaatactactcactcaat
ataatacacaatacaacgtatgtatgtatgctgcatggtactctcttaatcaacacaata
aaatgacatatccaaaaccccaataatactatagccagctaactagtatacgactcttag
attctagttattgtgcaatgaaccgtctagtatcgtcagttaaacaaccatgtaatagca
tagtctctttctctcagtgctcgaggagcattccactttagttttaacgcactacaaact
actatacatacgcaatttctttcagttaccaatacgctatagtcgctatataacgtggta
gcctcacgctacagttatgtgctttagatgtgaatacatccgcctgtcgatactggccac
ttgtcctatatacattggatacggcttatcggcacaaagtaaacaataacaatgcgtagt
atgtggtctgcaatgcgctgctctgggtatactggaacggtactacattgttgtacagta
atgataaagttttacgtagaccagtaactacctagaggtagctgaataggtgaatactgt
ttgactcttatgcttctgtctagtaatatataagagccgaagtctgtctcgctgcttaat
acgcgctcaaactgaaatcccaggcaagatgtctacgattaggaagttgagaaaaaaggc
ccaagagctatgagctaattcccttgcattgtccggtttggacgctaattgatattctga
aggcagctcatgtaaactggtttacgaagcatcttacaatccggccaagctgggacacag
cgtgcgagtgactacctttacctgtgacgcgattaccaagcgagagattaacctttttcc
tttggcggtgagtcgaaaaggaaacataccgctgggctctcgctcggtagcgagtttgct
gctggcaagtaaatcctacgaccaacaatactagcgcaccttggcccggctggatgcagt
caggatgtctcggttggctgtttgtacgctatgcgggcactatggatgcacgcaagtgga
ttaacgggtgggattcttgcttaatatatccgaagttgggaactagttacggattaggca
gcgagtcggttctaatttttatagaaaagtttgctccgcggagatatttacgagaagcac
cacatatatattgacgacgtatttttgcttactactactgtcctactaacgttgcacgaa
aaacacacaactagtcttcctttaactatgcaggcagaacatgagtgaatactagattag
ttttaattaacgaatcggtcactatcctgcactgttgcatattctccaattacatggaat
attgctaataatgcatgtataccgaatcgatctactaacaaattgaactcagctggttgt
gcgctgcatgtgcagttgaatgaatggtgccctgcatcgaaccgcagctgctattttaag
agtgctggtgcagtcgcctttttctcgctttactacaggttcagtgtgttttggtcgtcc
actgataagtagcgaaggccgaagcgtcgcggttcgggccccgaggcacgcactattcta
gcgtcataaataagagctggattcgttctaataggaccgttcaacgaattgcctctcctt
tcacctgtccacggctcaaaagtccattgttttcttctgtgacggcacaggtgggccatt
gttatacaggca

Reference(s)

Ogura et al. (2016). Developmental Control of Cell-Cycle Compensation Provides a Switch for Patterned Mitosis at the Onset of Chordate Neurulation. Dev. Cell 37(2):148-61

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