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CIS-REGULATION

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  1. Region 'REG00000417'

Cis-regulatory Region

Name

Ci-Pax6 -2500/7000 delta 1000/3700

Short name

n/a

Region ID

REG00000417

Status

In Process of Manual Curation

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Steven Q. Irvine (2008-07-01)

Annotator

Émilie Carmona (2008-07-01)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

This region is able to drive Ci-Pax6 expression in sensory vesicle, in neck and in part of tail nerve cord at the mid and late tailbud stage.

Hierarchy of Regulatory Regions

Modification of Ci-Pax6 -2500/7000 by deletion

Regulated gene(s)

KH2012:KH.C9.68 (PAX3; PAX4; PAX6)

Construct(s) made to test this region

CONS00000398: pPax6 -2500/7000 delta 1000/3700::LacZ

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

5,701,2395,709,428

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

Sequence

Aniseed Coordinates: [5,701,239 / 5,709,428] on scaffold KhC9

Sequence from JGI Version 1 thanks to coordinates in the paper. Nucleotides deleted was replaced by "-".

Show sequence

Length: 8,192

ATACACATATACATCTGGATTGCTAAGCTGGTATATAGGAATGAATTGGCAGAACTTGAA
TAGGAAAAGGTTTTGTATACAACATGTAGTCTAGTGCCGTGTAGGTATGGGTAAAATAGA
CCATGTTTTTATTCCATTTTATCATCCTATTTAGCAGCAAACAAAGAATATTTATAGAAA
TATACAAATATGTCCAGTAAAAGTGTGTTGTTGATTGTTAAAAATAATGAAAAAAAATCT
ATCTTCCCCCACTATATATATGCATCGGGTTTTAATTTCATACTAAAATATTTATTCATT
ATAACTGTATATATAGGTTATGTGACTCGTAACTCAGGCTAACAGTATATATTGAAATAT
ATTCTATTTTATCTTATGTATAAGATATACGAGAAGATGAGAAAACTGTCATATGATTGA
TTTGTATTTGATTTTTGATTCCGGATTACTTTCTAATTCCATCATGAGCCACGTTTTGTG
CAGTGGAGGGTAAACGTCAAAATATAACACGCGTTGACAGCTTTAATACACATACGGGTT
GTAGCGTTAGCGGGCGACATTTGTGACGTAGGGGATTCAATTTTCGGAGGGCGGGTGGGG
ATTAAAGCAGCAAAAACTAAAAATCGTGTTAAGGCGACGTGACCCGTGTCGGCCTACACA
TGATTAAAGTCTCGGCGCAATCAGAATGTTGTCATATCGCAGATGATGTCGACATCTTGG
CATCAAGGCTTTGATTATTATTTTTTGTAAATAATTAGCCCGCGCGTCGATGCAACTTAT
GGGTGAAATATTTGACATGGGAACCAATACTTTTGCGGCGGTATGGATATTTGTGCTGTT
GTCTTTTTGACAGGGGTTAACGCTCGCTCAATTGAGTTAATGCATTCCAATCCAAAGTGA
CTAACTCTTGAAGCGAAACTGAAAACGGATTCACGCCGATTTACGGATCCGCATATGAAG
GATAAAACACTCTATATGCGTCATTATTTCTCACGGAGCAGAAATCTACTATGATTCAGA
CCTAAAGTATATCCCAAGGAAAGCATTTCTGTTTATATCTGTTTAATCGCGGGTTAAAAG
CGAGCTTAGCACGTTTTTAACTGCTGGTCGAAGCCAGGTATTGGAATCTGAGAGCGTGTG
TAATCTAGCAGAAACTTTAGGACCGAATCGGCTGGCGGAAAGATAAACAATACGAATGCG
GTCGCGAATGGTGAAAACACACCTGCGGAGTTGAGACCTGGAAATCTGTTCTGTATGTTA
CTAAAAAATAACTCGATTTTTGGCATTGCTTCACACGCCTATTGCTGGGGGTGCGGGTAA
AAAGGAAAGAGATATATACGCGGCTGCTTTATGCTGCTGTGTTGGACAACGTCGGCAGCC
AGTTTACCCTAATCCACATGTTCAAATTAATTTCCTTCCAGCTGAGTGGCGAAGTAGCTT
ACATGGTAGCGGGGTAGGGACGTGCACTGCCCGTTGTGAGAAACTATTCTGAGATGGATT
ATCCCGAATCGGTCGTAGACGATAATCGTTTTTCGGGCGAATTGTAAGCAACTGATTTCT
TTGCAAAAAATGTGAATAAAATATCAGTTCATTTGACCCTGCGTTCGGCTTAGGTTAAAC
GTCTTCGTATACTTTGTTTTACAGGCGAAGAATCGTGGCTGAGTTCTGACAGTATATACA
ATGGTAGATTGAAGGACATTGTCCGCGAATACTTCGTCATGGTGCGTGGATTGTTGTCGA
ACAGTCGAGGCCCAGCGGGTTTGTCGGCGCTAAGACCCCATTCATTCCGATGTGAAATGG
AGCGAATGAGGAGAGAAGCAAAAGCTTAAAAATCAATGAGGATAAATCCTCCTCTCGGAG
GCTGTAAGTCGCGGAAGAGAAATACGTTGCGAGAAACTTTCTGCCTCGTCTTTTCCACCT
TCTCTGATTTTTACTGACGATTTTCGTTGATCAACTTGACTTAAAACTTTAGCAAAGATA
TAACTCGAATAAAACATGACCCCAAAACTCTAACGTAGGTATATGCTATGCTCGGCTAAC
CCCTGCTGGGGTGGCAGCTATCGCCGTACAAACGTGAGAATGTGCGCTTATTCAGGCTTG
AAATAGAGTTATGTTGCAAGCTACGGAATGTCAACAGAATTCGCTAACAAACTACTTAGC
TCTGGCCGTGTCACGGATGTCTTTCATTCTCTCCAAAATCGATCGCTCATAATCGAGTAG
GCCGGGTTTTAAGCGAAACTTCGGCGGGGTTTTTGGTCGTCGAGAGCCCGCCGACGGATC
GATGACACGCCGGTATCGATCGCGGTGCAACTTGATTCATAATAACTCGGTTTATCTTGG
AATTAGCTGCAGCGTCAGATAGGAAATGCGGGGCTGGGCTGGCCGGTTGCGGTCGACGGA
TCTTTACGTGACGCGACGGGGCGAGAGATCCAAAGAGCTTTTATTATTTATTTTCGAACG
CGGCTCGGGAATCGTCTTGAAATCCCGTCCAATTAATCATTAATACGGCTGTCAGTGGTC
GGGAAATAGTTTTTATTTTTTCAACTAATGGAAACCAGAGACCCGTTGATGGTTTAAGCT
CAACGTAATTATTTTAGAGAGGCAAACAGAGGTGACAAAGCAAGACAACTTTAAGAAAAT
CCCAAACCACCAAAATCGACGGGCAGCAGTACTTTGCGCTTTTAATGCCGCGTGTCGCCC
ACAGCGCGGGGCAAAGGACAAATTTCTAGTTAAGATTGAAATCAGTACACTTGCCTCCTT
GGCACCGTGGTCGTCGATAATCATTTTAAAAACTCGATAATTCAAAGCGTTGACACGCGG
CGGCTTGCATGTCGACGCGATGATCACACAGAGATAAAGCTAATCCTACGCACAACTGTT
TGGCCCACAAAACTAAAATACTGGTGAAAAATATGGGAAAACCAAAGTAACGAGCAATCT
TGATGAAAAGGTTTTTGCGTAAGTTAAAAAGTAATTAAACCTGCACACACAATCGTGAAA
GCATATTTTTTTACACAGACTTTATAAATTCCAATGCAAACATGACACCCCATGTGTGAT
ATAATTTTCATTTTAAACATTTCCGTTTAAAATTAAAACCACCATGTTTGTATTAAAACT
GATAGAAAACCCGTGTTTTATGCACCCTTATATAAATTCGTTTATAAATACCGCGATTCA
CAAAAGTGACTTTAAATAAATGGACACCATATATATACGTCATTTGTAAGCTAAACAGGG
GTCTTACCTTTCAGTCCCATAAGACCTTCGGCCGCA------------------------
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------------------------------------------TTTAAAATATTTCGCCGA
AAATGTCCAGAGACAGAAAATGTAAATTTTCCTAAATCAGAAAAGTCCTTTATATATAAC
AGTATATGTCTGTCATTAAAATAATGTCAGTAAGGTTTAAAATTATAAGGTAAACAATTC
ATAAAGGCATGCAAAAATTACAAAGAATATGTCTTGGTGGTAATTAATATGTTTTTTTGT
ATATTTTTTTAAAGTAGAACGGGGGAAGACGGTACACCTTTACCACATAATATCTAAACT
TTCTAGTTGTGTTTTTAAACAATTAACAACGGTGCATGGGAGTCGTAAAATACGGTTTCA
TATTTCTTTGAATGTTCTTTGTTTACTACCAAATTGGACGAGAAAACAGATTGAAAAGGT
GTCCTATCTCCCCCCACCCTACTATATCATTTTATTTATCGTCTGCTTGTTTTAACATAT
TATCCTGTTTAATTCGACCAAGGTTTATATTTCAAACATTAACCATCTCGGTTTTCGGTA
CATAACAAAAACAAGCGACGACAAAATAAAATTTCGAAGATATCGCGGTTTCCGAAAGCA
AATTCAAAACACGAAAATCGAAGTCGGGACAACATAACATATGACGGAGCGATAAGAATG
AAATTTGGCGCTGACGAACACGGTAAGGCGGGGATATATTGGGCCTGTAGCCGCAGAGTG
TTAATCGTGGAACAGTTGTTTTATTTGGCCGGAACTGCGATAAACAGAATGAGTTAATAT
TTGTTCTGGAGCCGCCGGTGAGCTATTTCGGTGTTGTCACTTTGCTGATACTTATATTTG
CGTGGTGTGGGCACGCGACTCTGCTGTTATCGTTAAGCGATAGCGGAAAAGCGGCCTTGG
AAATGGGTATGTTACTACATTTGTGAGCAAACAGTTTTATCAGTACGGATCGAATCTTGA
AAACAAGCCTAAAATTGGAGTCTTGTTGTCCGTGGTTTAAACCGTCGTGAAATTGAGTCT
ACACGAGCAGGTGCAACAGGCAACTACTTTCGTACATCTGTAAACTACTTCGGCGAAACT
TTTAAATAAAATTTGAATCGAAACGTGGCGCGAGACCTCGGGCTCGGAGGAGTGGTGTTC
CGTACAATGGCCGACATGGAAGGGCTTTCCGAATTGCACCAAATCGGTGCGGATTAACGC
AACGGGATATCGGCCCGTGGACGCCCAAAGTC

Reference(s)

Irvine et al. (2008). Cis-regulatory organization of the Pax6 gene in the ascidian Ciona intestinalis. Dev. Biol. 317(2):649-59

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