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CIS-REGULATION

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  1. Region 'REG00000263'

Cis-regulatory Region

Name

Ci-Gai1 -4208/-994 delta -2873/-1463

Short name

n/a

Region ID

REG00000263

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Reiko Yoshida (2007-11-20)

Annotator

Clara Degos (2010-07-22)

Curator

Delphine Dauga (2010-02-24)

View position in WashU

Description

Region from -4208bp to the start codon allows expression in the
nervous systems (in the adhesive organ, brain vesicle, visceral ganglion, and dorsocaudal epidermal neurons on the dorsal midline
of the tail) and in the mesenchyme. No GFP expression was observed in tissues other than the nervous system and mesenchyme cells.
The region between -3176 and -3090 indicates a highly conserved region, Gai1-CNR.

Hierarchy of Regulatory Regions

Modification of Ci-Gai1 -4208/-994 by deletion

Regulated gene(s)

KH2012:KH.C1.612 (GNAI1; GNAI2; GNAI3)

Construct(s) made to test this region

CONS00000254: pCi-Gai1 -4208/-994 delta -2873/-1463::EGFP

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

4,935,4134,938,626

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

Sequence

Aniseed Coordinates: [4,935,413 / 4,938,626] on scaffold KhC1

This sequence was found using JGI V1.0. Relative coordinates were taken in the articles (+1 refers to the first exon of JGI gene model).
Nucleotides deleted was replaced by "-".

Show sequence

Length: 3,214

CACTGTTATAAATTTAAATAAATAGAAAAGCCAAATAAATAGAAAACCCAAAACTTACCT
GAACCCAAAGGGATGAAACAACCGTGTCCTGTAGAAAGGTTTTGTAGATAAATAGAAAAG
TTAGAATGGAAATCAACCTTTGTCTTCTTTCTTAGATATCCAGTTTGTATAAAATCGTAA
AATAAAAATGCTTAGCTCAAATCTACAACAGAGAACATAACAGGATTAAAGTATATAAGC
AGTCGACACATACAAGATACACGTAACACAACTGGCTGGCTATTAGACTTATATTATAAA
TGAGTCACCTCAGAGTAGTTGACGCATTACAAAAACAAAACGTACTCAAGTATTCATTGT
TAAGCACACGAATTCAACTGAAGTAATTAAATAATTATTTTAATAGATCACTCCTACTGT
ATATACTAATTGAGAGGGTCTATACTTAACCAGTGTACGTCACTAATTG-----------
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-------------------TATATGATGGGAAAACAAATACAAACGCTCAGTTCTCATAC
ATCGGAAATCATTTCACAGAACCAACAAATAAGCGCACTACAGGGAGGACCTAGATTCTT
ATTCTTAGCACGGAACTTAGTAATATTGTTTACTAACGTGTTCACATTTTAAGCACACTC
AATTACACCGTACATAGCTGAAAACCTAATATTACAACGGCAATGTACACCACTCGCAAA
CCGAATACGCCCAACTATCGATCCACTCCGCTTCTGCGCGTTTCTTCTTTCGTTCTTGAT
GACCTCATTTCAAAAATCGATTTTTTTTTTTCTTTTTTTTCGCGCAATCCGCGATAAGCA
ATTGGGGTATAAGTGGACTTGCAACAAAAACAAATTTAGTTAATATAAATGTGTTAACCT
AGTTTTCTCTACAATGTATGTATTTTTTTAAAGTAAAATATTGTTAAGAATAATTTCAAA
AATAGCGGGTACCAGAAAGCAACCAGCAAAAATGACGTCACTGAAAAATGAGAGGTCGTT
TCTGATTGGTTAAAATGAGTTCAAATTTTACGATGTTTTTGCATCGTTTGACCGAAGGGA
TAAATGTAACCTCTTTGCCACTGTTTTTCTCAAACGTATATGAGTCATCGGTGTTTAGTC
AGTAATATTTAATAAAGGGATTCTTCCCACAATAAACCCAAAACAAGTTTTACCAACCTA
ATTATATGCGTTGTGGTTTATGATACAATTACAAAATAGTTCTTTCTCACATGACGCAGA
AACCCTGTTAGCCTGTTTATTACAAGCAGTTGATTTCACGAACCATGTTTCTGCAACCAA
TTTAAAAATGAATTTTTTTTAAAGAGTTTGTAACATTGCAACCTAAAGAAATGTGAAACA
ATACACAAACACAACATTGCTTGAGGGTATAAATGGCAATTAAGATCTAATCAATCAACG
CCTAACTAAACCACAGAAATTCCTTTATAAATATTGTTAATAGTTGATATTTAAGCGAAA
TCCTATTTAAAGCTGTATAGAGTTCTAACCAAAATAACACCTACTTTTGTGATATCTTGT
ATTTCCTTTGTAAATTAAATTGAAATATGGAAAACGTTTTAAATAAAAACACAATTTCAT
ATTGCACTATAAATAGGTTTAAAATTATATAAGCAATATACTGCAAAAAATCGATGAAAG
AAAGAAATTTAATATGTTTTACAAACTGTTCATTTTAGAACACTGGGGCAAAAATACTAT
AATCAACATAAATGTCTGCAATATTATTTAATATTTAACTTTATGCCTAGCTTGTTAACA
AAGATCCAGATCGTCTGATTGGCTAAAACTGGTC

Reference(s)

Yoshida et al. (2004). Identification of neuron-specific promoters in Ciona intestinalis. Genesis 39(2):130-40

Yoshida et al. (2007). Comparative genomics identifies a cis-regulatory module that activates transcription in specific subsets of neurons in Ciona intestinalis larvae. Dev. Growth Differ. 49(8):657-67

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