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CIS-REGULATION

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  1. Region 'REG00000048'

Cis-regulatory Region

Name

Ci-Hox3 -450/174

Short name

n/a

Region ID

REG00000048

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Annamaria Locascio (2007-03-03)

Annotator

Clara Degos (2010-07-22)

Curator

Delphine Dauga (2010-02-24)

View position in WashU

Description

JGI transcript model was taken as reference for the region's coordinates.

Hierarchy of Regulatory Regions

Modification of Ci-Hox3 -1000/174 by deletion

Regulated gene(s)

KH2012:KH.C1.38 (HOXA3; HOXB3; HOXD3)

Construct(s) made to test this region

CONS00000030: pHox3 -450/174::LacZ

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

9,905,0639,905,685

Motif Name Binding Factor(s) Sequence Position in Region Comment

Sequence

Aniseed Coordinates: [9,905,063 / 9,905,685] on scaffold KhC1

This sequence was found with a blast on JGI site with the sequence includes in the publication listed bellow. This sequence was not exactly the same in the publication, it seems that the publication lacks few nucleotides.

Show sequence

Length: 623

CGTTAGCGCTGAACGGGAAACGTTCTGGTCATAATAATCGAACCACATTTGATGCTTGCG
CGGTTACTACGAGTTCGGATTTGTTTACAATTTTTTAACAATTCTCAGACTGTTACAACG
ACTTTTTAAATAAAATTTTGACCTTTTTTGAACAAAAAAATAACAAGTACATTTAAACTT
ATTATCCTAGAATTCAAGTTATTACAAAATATTCAATAATTAAGCAATATATTAAATGTA
TTTCATGTGAAATATTGAGAATAATTTTAATTAATGCAGGGCGTCCAGTTTGGATTTGGA
ACCTAATCTCGGAGATCAATCAACAGTCTTCTTGGGTTTAAAGGAATTATAAAAAAACAA
AAAAAAAATTGGATTTACGTGAAGATACGTTTCACCGTAACGTCACAGATTGATCGACAA
AGTGCATTATCAGCAAACAATCCGAGCAATGAAGAATGGGCAAGAGAAAGCACCAGCTGC
GACCAAATATAGCGTCGCCGCGTCGAACACCCAGAATAGTGGAGATTACTTTGGTAAGAA
GCGAGCGGGCAATAATATAGAAGATCTTGGAAGTTATTACATGGGGGTTGAAGGACATAA
CACGACGAATGCAGCAATTGAGA

Reference(s)

Locascio et al. (1999). Patterning the ascidian nervous system: structure, expression and transgenic analysis of the CiHox3 gene. Development 126(21):4737-48

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