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CIS-REGULATION

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  1. Transcript 'KH2012:KH.C3.605.v1....'
  2. Transcript 'KH2012:KH.C5.25.v1.A...'
  3. Region 'REG00000666'

Cis-regulatory Region

Name

Ci-RhoD 228/835

Short name

n/a

Region ID

REG00000666

Status

Curated

Origin

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

Type of Activity

inactive_region

Author

Lionel Christiaen (2010-04-25)

Annotator

Clara Degos (2010-04-25)

Curator

Delphine Dauga (2010-05-05)


Description

Region from +228bp to +835bp of the RhoD/F gene, containing the second exon, but the two last FoxF sites were absent.



Be careful, coordinates in the paper are different from ANISEED coordinates. We took the KH transcript model as reference.

Coordinates in the paper : +161/+768

Hierarchy of Regulatory Regions

Modification of Ci-RhoD 228/989 by deletion

Construct(s) made to test this region

CONS00000644: pCi-RhoD 228/835 bpFOG::LacZ

Overview of functional TF binding sites in this region

7,847,9687,848,574

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox n/a TGTTTGA [616 / 622]
2 Fox n/a TGTTTAT [707 / 713]
3 Ets n/a TGGAAG [754 / 759]
4 Ets n/a AGGATC [796 / 801]

Sequence

Aniseed Coordinates: [7,847,968 / 7,848,574] on scaffold KhC1

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

Show sequence

Length: 607


TTTTGTATAGTTGTCAGTTTCAATACAAATATAGTGGGATGGGGAAAGATGGGACAACTT
TAACACCTAATATCCAAATATTCTGGTGGTGTTTTAAAGAATAAACAATGGTCTACGCCC
TACGGGGTCGTAAGGATACGGTTTTATGATTCTTTGTATGTTCTTTGTTTACTACCAAAT
GGGACGAGAAAATCGAATGAAAAGGTGTCCCATCTCCCCCCACCATACTATATATGACAG
TCCGTATATATACTAGGGCGAGCAGGATAATTGGATAATATGTGCTAAAGGAATCCCATA
TCTTCCTTAACAGTACTATTTGGTATAGTTTGCTTATACTAAATTTAATTAGCAACCCGC
TGTTGTTCAAAGGTGTACACGCCCACGGTGTTTGAGAATTACAGCAGAGAGGTGGAATTA
AATCGAAAGAAGGCGGTGCTAACATTGTGGGATACGGCGGGTATATATTAGTACATACGT
GTTTATGCAAGACATCGTAGGCTTGTTGACTTAGTTTCGGTTAGCATGGAAGTGTAGTCT
ATGTTCTACGTGGGTTATGTTCTTGTCGAGGATCTGGGATTAGGGCTAAATTCAGCCTAT
TATTACC