Aniseed - Cis-regulation

Region 'REG00000131'

Cis-regulatory Region

Name

Ci-sFRP1/5 -1783/-1083

Short name

n/a

Region ID

REG00000131

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Clément Lamy (2007-03-27)

Annotator

Clara Degos (2010-07-12)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Region from -1783 to -1083 is the enhancer of the earliest Ci-sFRP1/5 expression, driving expression in all a-line from the 64-cell stage.
This region contains essential Fox binding sites, and is named sFRP-640 (Lamy et al, 2006).

Hierarchy of Regulatory Regions

Modification of Ci-sFRP1/5 -1999/-933 by deletion

Ci-sFRP1/5 -2000/1 REG00000223 [ regulatory_region (extended_promoter) ]
- Ci-sFRP1/5 -991/1 REG00000224 [ inactive_region ]
- Ci-sFRP1/5 -1999/-933 REG00000225 [ regulatory_region (extended_promoter) ]
  - Ci-sFRP1/5 -1783/-1083 REG00000131 [ regulatory_region (enhancer) ]
    - Ci-sFRP1/5 -1601/-1339 REG00000217 [ regulatory_region (enhancer) ]
      - Ci-sFRP1/5 -1523/-1405 REG00000132 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1523/-1429 REG00000221 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1493/-1405 REG00000222 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1493/-1429 REG00000186 [ inactive_region ]
        
        Ci-sFRP1/5 -1523/-1405 Fox1-2 mutated REG00000228 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1523/-1405 Fox3 mutated REG00000233 [ inactive_region ]
        
        Ci-sFRP1/5 6-fox sites REG00000241 [ regulatory_region (enhancer) ]
      - Ci-sFRP1/5 -1601/-1430 REG00000219 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1601/-1453 REG00000185 [ regulatory_region (enhancer) ]
        
        Ci-sFRP1/5 -1601/-1475 REG00000220 [ regulatory_region (enhancer) ]

Regulated gene(s)

KH2012:KH.L171.5 (SFRP1; SFRP2; SFRP5)

Construct(s) made to test this region

CONS00000124: pCi-sFRP1/5 -1783/-1083 pFOG::NLS-LacZ

Show in situ data

Overview of functional TF binding sites in this region

33,60234,301

	Motif Name	Binding Factor(s)	Sequence	Position in Region
1	Fox	n/a	TGTTT	[-1,509 / -1,505]
2	Fox	n/a	AAACA	[33,826 / 33,830]
3	Fox	n/a	AAACA	[33,866 / 33,870]
4	Fox	n/a	AAACA	[33,876 / 33,880]
5	Fox	n/a	AAACA	[33,968 / 33,972]

Sequence

Aniseed Coordinates: [33,602 / 34,301] on scaffold KhL171

Show sequence

Length: 700

GCTGTATATACAACTTTGCATTCATTCTGTGTTAACTTTTATTAATCGGAGTTAATGGCA
TTAATCGGAGATCTCTTAATTTTATTGAATGAGGTTTCTTTTGTGACGTGTCATTAGACG
AACACTTCCTGTTAGTTCGACTATTATTATTCTAACCTAATTAAAGACACTCCCTCCATC
TACGGGTTCTCATAGAATCTACTAATTACATAAAAGTCCAACAAAAACAAGTTTAATCGA
TTGACTCAAACTCGTTATCAGCAAACAAACGACTTGTTTACTTTTTTTCTTGTCCCGTTA
ACAGATTAGGAGTTGGTGCCAGAGGATTGATTTCATTGTAATCTGTTGGTGTTGTGGCTC
CAATTTAAACAAACGTGCTGAAACTGGTGCAGCTTACAGGGCTTAAATTTGGTTACGTTT
TATGCTACACTAATTTGATAGCAAAACATTTGTGCAGTGAATAGTTCGAAATGCTGCTGG
AGTAACGAAATTTATAGGATAGCATATATGGCAGATGAAAGTCAACCCTTTCGTTGAGAA
AATTCATGTTACCGTGACATTTTAGTCAATTAGGTGAGGATTGACATGGAGTTTCGCTTG
GTTGTAGATTGTACAACACGACATGTATAACACGATAACATATATAATATTACATTCACA
TGCTTTGATAGTGACATCCCTTTAAAGAATGAATGTGACA

Reference(s)

Lamy et al. (2006). Ci-FoxA-a is the earliest zygotic determinant of the ascidian anterior ectoderm and directly activates Ci-sFRP1/5. Development 133(15):2835-44