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CIS-REGULATION

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  1. Region 'REG00000251'

Cis-regulatory Region

Name

Ci-Gai1 -2873/-8

Short name

n/a

Region ID

REG00000251

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Reiko Yoshida (2007-11-16)

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 -3146/-8 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000245: pGai1 -2873/-8::EGFP

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

4,936,7484,939,612

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

Sequence

Aniseed Coordinates: [4,936,748 / 4,939,612] 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).

Show sequence

Length: 2,865

TTCATTTGCTGCTTTATCGTCTGTGGAGACTGTGCAACCCATGATTCCGGCTGTGCTTGT
TCGTATAAACACCTAATAGCAGATTAAAAGCTGTTTTACGCCAAGCGCCCTTAATGTTAC
ACCTGCAAGCATATATGGTGCAAGGTATACAGATTAATTGAAAGTCCTTGTATTTTCAAA
CAGAGATAGCTCGTATGAGAATCAAGGGTAGGATTTAACCTGACACATTAGACATTATCC
CATGGCAACTCGCAACATGACTACTATCTTTGACTAAGTTATTTATTAAACTCTTAAAGC
TTTTATATTTATACCTGCAGTCCACAGTCACTACTATAATAAAGCAGAACCATACCAGTA
CAGGTAGATTTAGCCAATACAAAATAGTACAGATCTAAATTATTGAAAGAGTGGTTGTAA
AATCTTTTAAAAACATAAAGACGCTATTGGCAGTTATACCTTGAACTCACAAATGTAATT
GTATCACAAAGTTTCTAACATATTTCGAATAAAACTAAAAGGAGAGAAGACTTCTTGAGC
AAGAAACAAAATCATGTAAAATACACAAGCATAACATTGTAATGAGCAGCATTGTTTTCA
TGTGGTTAATAATGATTAATATTAAAAGAAAACAAGCTAACTTCCCATAGCAGGAAGCGT
AGTAAGCCTAGCTAGTAGCTTTGCAACCAGCTGTAATAAAACGATTAATTATAATGACTT
ATAAATTTCATGTGAGTTTTTGGAGTTGATTAAAATTATTGACCTTAAGAAGTAGCAGTT
TAAATGGATTGTTTATAAACCATCAATGCAATTTTGCTTTACTGCATATGACCAAAGCAG
TATGGTTATTTTGAGTAGTCAACTAGCCATACACATGTGGAAGCCACACTCCTACACAGT
TTATGTATGGTAGCACAATCCTACTTGTTGTTCAAACTAAAGATAGAAAATGATAAAAGT
GGCTTATCAAATCCCCATAAAATTAGCACTGTTATAAATTTAAATAAATAGAAAAGCCAA
ATAAATAGAAAACCCAAAACTTACCTGAACCCAAAGGGATGAAACAACCGTGTCCTGTAG
AAAGGTTTTGTAGATAAATAGAAAAGTTAGAATGGAAATCAACCTTTGTCTTCTTTCTTA
GATATCCAGTTTGTATAAAATCGTAAAATAAAAATGCTTAGCTCAAATCTACAACAGAGA
ACATAACAGGATTAAAGTATATAAGCAGTCGACACATACAAGATACACGTAACACAACTG
GCTGGCTATTAGACTTATATTATAAATGAGTCACCTCAGAGTAGTTGACGCATTACAAAA
ACAAAACGTACTCAAGTATTCATTGTTAAGCACACGAATTCAACTGAAGTAATTAAATAA
TTATTTTAATAGATCACTCCTACTGTATATACTAATTGAGAGGGTCTATACTTAACCAGT
GTACGTCACTAATTGTTTAGCCAAAGTTGATTGGAATATAAACACTACTTAGATATTTAT
ATACGCACACAAGTTACCTCGATATAGAAACAAATTGTCATTTATTAATTTGATATTGTG
AAAAATCAACCATAGTTTTTTTTAACAAGAACCTTTTTCTAAAATGGTAACATGATATAA
TATATACATACTGCAAAGCAGTTTTATTCATATATTAAGTGGTTTTTTACATAATTATAG
TATTACTAATTTTGGAAAACAAATTATTTTACAGGCTGTTAGTTGCCCTGATTAATCTAT
ACAGAAAAATTTTGAAATGGTCCTTCAAGCAAATAATCAACATTTTGGTGGCATACTGAC
ATGATAAGGGTTAATGAATTATTGCATCCAACACATGGGTTATATATGCCATAAAATCCA
ACAATAAAAGGACAGGATTCAGTTCTATTGCCTTTATCAAGAGTCATAAACTGACAACAA
CAACAAGGCAATATTCGTAAATTTATTTTACATACGTCACATAATAAATTGCTTTATGAA
CCCAAATTATTTAATAATACCAATATCTATAAGCTATGACTATACAAAGGCAATCATCCT
TTTAAGGACTGATGTTGCAACCAACATACCTTGAGTATTGCAATTCTCTGTTTTTATATT
ATACACAAAATCATAATACATTATTATATAGCATGACAAACCAGACTTCATATGACAAAA
CCAAAGCAATTTAGACTAAATGTGACGGGTTTTCTAAAAATGGGCTGACTGGCTAAATGT
ACGGCATAAGAGCAGAGATTTAGGTCACAGTTGATCCATTATCCAAACACTAAAAAAGTA
TATATCGGCTATCGCCCTGATTGGAAGTAATCGCCAGTTACGGCTTTCCAAGCACAGGTC
GTTTGTAATCAATACTGCTGTATTAAATTTAATAATTAAAGAAAAGATCGGGACCGCTCA
AAAATTCTTTTTAAATCTTGACAAAAAATATCCTCATCGCAAACACAATATTTTCAACTC
GGTTTGAGGCAAGCAAAAAATAAATATTCACTCTATATATATATATATATATTTGCTGTT
GAAGGTACCATTTTGTTTTTAATCTTTTTTCAATTGTTGTTTTTGTAGCCATTACTACCT
GAATCAACAAATACTCCACAATTATTTTAATAGAACAAAAGTGTACAAGAGAGCATACCA
GCTCTTGAAACATAAGGTAGTTAATACAAAAGCAAAACCAAACTGGTTAAATCTAAGTGC
TATTAAAGTTTTACCTTTGCAAACTACATAGTAAAATACTTCCATAGTCAATTTGAAGGC
CGTATATTGTTGCACACCTTTTAACTTTAAAAATTACCTTATAACACTTTTACACTCACT
TTATAACACTTCAACTGATGAATACAACGACCTTGCAGTGGCTAC

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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