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CIS-REGULATION

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  1. Transcript 'Cisavi.CG.ENS81.R156...' > 
  2. Clone 'ma319b22' > 
  3. Region 'REG00001105' > 
  4. Transcript 'KH2012:KH.C8.904.v1....' > 
  5. Region 'REG00001163'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C5:4201966-4204077/cdc25_µGATA_Sox deletion

Short name

Ci-cdc25(-2109/+3) µGATA_Sox deletion

Region ID

REG00001163

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Yosuke Ogura (2017-02-17)

Annotator

Marion Gueroult-Bellone (2017-02-17)

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), and the three Sox binding sites of CRM2 were deleted.

Hierarchy of Regulatory Regions

Modification of Cirobu.REG.KH2012.C5:4201966-4204077/cdc25_µGATA by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00001137: pSP.Cirobu.REG.KH2012.C5:4201966-4204077(µGATA_Sox deletion):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 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.
2 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.

Sequence

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

In this sequences, two GATA binding sites were mutated and three Sox binding sites were deleted.

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
gcgtcataaataagagctggattcgttctaataggaccg-------aattgcctctcctt
tcacctgtccacggctcaaaagtc-------ttcttctgtgacggcacaggtgggc----
---atacaggca

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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