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CIS-REGULATION

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  1. Region 'REG00000267'

Cis-regulatory Region

Name

Ci-Hox3 -4200/-3000

Short name

n/a

Region ID

REG00000267

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Annamaria Locascio (2007-11-21)

Annotator

Delphine Dauga (2007-11-21)

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 -4200/174 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000257: pHox3 -4200/-3000::LacZ

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

9,908,2479,909,436

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

Sequence

Aniseed Coordinates: [9,908,247 / 9,909,436] on scaffold KhC1

This sequence was found with a blast on JGI version 1.0 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: 1,200

CAGCGGTGTTGCGAGGCTGTTTCGCCAAATCTGTCATTATAAATCAAACCGAAATTTAAT
AATAATCCATTAAATCTAGAAGCGTGGCTCGCAATATGTTAACAGCTTGGCGTAAAATTA
TTTTTAACATTTTTTCGTGGTGTTTTGTAACTTGGGAATAAGAGTGAAAATTTTATCTCT
GCATCCCGTGCAACAAAATCGCTGAAATTCTTTCGTTTTGCGATCCGTAGTCGTTCGATC
GATGAGGTTAAGTAGTTCGAAACATCAATCTTTAAATAGGAATCTTTGATTGTGATGGAT
TACCTGCGTTTGTTCCACGTCACAATCGAACAATAGAAAGAAAAATCGCGAGGTTCCGGA
GTGTTCCCGTGTGTTTTAACCGACCAGTGTTTCCAGCTCTAAAATTCGACTTATTCTAAC
GCTAAACCTAGATTGACTTGGTACAAAATTGCGCAACACTGCCGTAGGAAGCAGCTATAC
CACAAAAGTGATATAAAACGAATCCGACTTCGGTGTTTATTTAATCGATAGAACTGGTGG
AGCGTCGCTAACTAAGACGGATGAATTGTGCTTCGATAGTTTGGAAACTTTATAGGATGA
GACAAGACGAAAACAACAACAATTGTCTGATTTTATTTAAAACTTGTAAAACCTTCCTAT
TCGTTGTATAAAAATATCCTTCATTTATTACATGGTTGCACTCGCTTCGCACAGTTTAAA
TGAAGTAGGTTGTGGTAGGATGGGCCTTGTTTTTAATCTGATTCATCGTCTCTTGGTGGT
AAACAAAGAATATTTACAAAATTATATAACTGTATCTTTAAGACCCGTGGTTAACTGATA
TATAGACACGATTAGAAAATATGGAATATTATGTGATAACGGTATCCATTCCATCTTACC
CCACAGTAGTATATGTTATAAAGCCAGAACACGTCCCATATTAACGATAAGGTTTTAATA
ACTGTATACAACTATTCACACACAACAAATATATTCAAGTACTTTGGTAAAAAGGGAGTT
ATTTTGATTATTATGCGCTAACGGTATCCAACTTACAACACAGTACAGTTGATGTACATA
TATTCCAATACAGTTTAGTTAAAAAATATATTATTTTTAATATAATTATTTTACGTCACG
CCTTGATTCGCTTGCAAGTAGCCCTTGACAAATTTGTACAAAGGATGTAATCGAAGACAA

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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