- Region 'REG00001487' >
- Clone 'cima812574' >
- Region 'REG00000731'
Cis-regulatory Region
Name
Ci-Hox1 -2488/502 Intron 2 added delta 821bp
Short name
n/a
Region ID
REG00000731
Status
Curated
Origin
engineered region from C. robusta formely Ciona int. type A
Type of Activity
regulatory_region
(complex_region)
Author
Miyuki Kanda (2010-06-16)
Annotator
Clara Degos (2010-07-22)
Curator
Delphine Dauga (2011-08-16)
Region upstream of Ci-Hox1 from -2488 to +502bp leading expression in epidermis, posterior trunk, and anterior tail. Be careful, in the paper the coordinates are different : -2505/485.
This region was named Ci-Hox(deltaBsSp) in the paper. In this construct, a part (1.9kb) of the second intron of Ci-Hox gene was added between the nucleotide position -972 and -878 (the region between was deleted) in the regulatory region. There is an other modification : 821bp were deleted.
The two conserved elements (between Ciona species) and the RARE regulatory motif were absent, due to the 821bp deletion.
Modification of Ci-Hox1 -2488/502 Intron 2 added by deletion
CONS00000697: pCi-Hox1 -2488/502 Intron 2 added delta 821bp::LacZ
187,934190,923
| Motif Name | Binding Factor(s) | Sequence | Position in Region | Comment |
|---|
Aniseed Coordinates: [187,934 / 190,923] on scaffold KhL171
The sequence was found thanks to the primers used in the paper.
The coordinates were based on the first exon on the most long KH transcript.
The deleted sequence was replaced by "-".
Show sequence
Length: 4,802
TAGATTGATGATTCAATATGAGGAACGTAATTTCGGTTATAATAGGACTCAGCGAGCATT
CAAAATTACAATCTTGTTTAAGGATCTCCTACTTAGGTTTTATGGGCATACTCAAGAGGC
ATACCAACAAAAGTTCAAAATTTATTAGGCGGAGTTGCTAAATATTCTTTAAAAGTACCA
CTAAAGTTTCAAAATACCAAAAAGCTTTTAAAAAAATGGCGTGAAATTAAAAAGTTGTAT
GGCGAACTCACACTCAACTTAGATTGGTAGCTTCTACTGCAAAAATGTTACATCTCGTGT
CGTATTTTTTTCAGCTCTCAATAACACCGCAATAACATGTTAAAAACTGTTATTGCGGTG
TTTCGATAAAAGGAACACTTTCGATAAAAGGAACATGGTGATATTTATTTAAAAAGAGGG
AAAAAATGGCTTAACTGCGATTTTAGGATATTTTGGCGAACCTAACCTGTTATATAGGCT
ATTATGTTACTCATGTGCGAGTTTACTTAATATACATTATTGAGTAGGCCATGACGCGCT
TAAACTTGTAGAAGAAATAAATTAAACTCTACAAATATATTAGATAGTACTTTAAGCTAA
ATCCACCGTTACATTTATTGCTGTTTAAAACGGTACCGATTTCGAGTTACTGTCACTTAC
ATATTTTAGCGGTAACGTAACTGGTGCATCTTGATTGTGCACAGCCAATCTCTTACAATG
GAAAATGCCGTGCTGCATATTTTCTTTTGGCGATGTCTTGGAAGCGGCTAAAGATTTTTA
TTTCACAGACGCATAAATACTTTTAGCCTAATATTTGTCAAATATTTATTATCTACAAAC
GTTGCTTTAACGCAAATAATTTTCAAAGTAAAAGTCCGCTATATCGGTCTGTGTTAACTT
TGGTGTATTTTATTTTCTCGATTTTAAATGACGCCCGTATACTTAATAGCCACCTGCTGG
TAAAGCTGCAGTGCATAAAAATCGTTTCTAAAAATCAATAAAATCCTATCAAATACAGTT
AACCAATATGCATCCAAATTTTATGATTGATTTATGATACATACCAAATACTAAAGTATT
AACCGCAATCACGCTTTTAACCTGTTACGATAGTATTTATGAGTTAATAGAGTATTTATA
TAGCTCGAGCCATGGCCTACTCGAACATATGTTTCAGTAGGCCATGCTCGAACATAAGAA
ATTCAGATATAGGAACCTGTTTGTTCTTCATCGCACAGCATTTTCTTTTTGTCATCACAT
AAACGAGGAAAAGTGTAGAAATGTGTATTTTCAACGGCTTTATGCCTAAACTTCCCACTC
ACGAATCAACTTTCAAATATATATTCACTCGGTAATATTGCATATAGTTTTTAATATTAT
GTAATTGATAAAAGAAATATGCACAGACTATACGTACTAGAATATTATTCAAAGCAGAAA
AGTCTAATTTTATTAAAACTTCGCCCCAAATCCTTGTTGCATTAGTTTAGCCGGTCTTAA
ATATCCTTATTGTCGACCTCGAGCGTTTCTCTCTATCAGATCCCGCGTGACATCATAATA
GAGAAAGTAGTGAAATAAAAGACAGATTGAGTAGTTACTTGCTTTATTTATTGGCGCATC
GTAGGTTCGCCTCATTGCGCGTATTTTACGAGGCGGGTAGTGACTATTATCATATTTTAT
CTAAGGTATTTATACGCGTCATTATAGAAAATATTTTGAATTTATAAATTTAGGCCGTGA
CATGCTTTAACAACTTTTTGTACGGTTAAAACTAATCGCAATATATAAAGTCCTAATAGT
AGGGTTGTGACACCTTTTCATTCGATTTTATCGTCACATTTAAACAAAAAATATTCAAAA
AATATATAAAACCGTATCCTCATGAGACTACTATAGACCGGTGTTAATTGTTTTAAACAC
GATCCGAAAATGTGGACATTATGTACCAAAGGTGTTCCGTCTTCTCCCATAGTACTTGAT
ATCAATGCCTAATAAGGCTATGTGTCCACTATTTGTTTTTGAATTTTGTGCCCAACGTTT
TGCTAATGCAGCAGTCATTGTGCTTATCTTGGTTTAAAAGGTAATCGTTCCGCATAATTA
GCATGTTGCTTTAGTAAAGGAGATATGGTCACGTGGTGTGTCGATCACCGTTTTTCGACT
TTCTGTTTATAAAATACATTACAACATCACCAATACTATACCACCAAAAGGAACACGCTA
TTACGCTTAAAAATACAAGTTTCGTATAGAGTAGGTTACGATGAGATGGTCTATGTTTTC
ATTCTCTATTATAATCCCATTTAGTATTAAACAACGAATATTTGTGGGTTTATATAATCG
TATCTTCGCGACCTTGAAAGCGCGTGATTATTTGTTTAAAACACGGTTAGAAAAAAATAT
GGAATTTTATGTGCAAATGGTACCCTACTATATTTATTGGCATTAAAATTGCGTGGTCAA
AGGGAACGTTGTCGTTTCAATGGTCCCTTTATCCGTCATGTGAATGATATCGAAACGCCG
CGGGGTAGATGCTGGGTTCATGAACTCTCTGTCCTTTCGCTCACACTATATCTTTGCGGC
GTTGGGCGTATCGATACCACGGTAAATATGTACACATCGTCGTGTCCTTGTCTACCAGTC
ATCCGTAAAATCGACCCAAAACCACAAAAAATTCTACGGGTTTTCCGCTGCCCGACGCGA
ACGGCTATGCGTTACTTTCAGCTAAAGTACTCTTTTAACATGTATTGCTCTTTATTGCTG
TTATTAGATTTATAAAACTTGTTTCCAAATAAGAATTATAGTGTGGTTATCTGTGCAGCA
CAATGTGCTTATATACGACGCCAGGTTAGAACACCTTGAACTGGAGTATAGATGCTAAAT
TTCTCGAATAAAAGCAATGCACATTGAAAACAGATTTTACCTAAAATATATAAAATTAAG
CCGAGTATATTTGTACTAACGTTGCTATGTTGCGTCTTGTTCAAGCAACAAGATATTGCC
GCTTAATGCACTGGGAAACCGTGGAACATCAAGTACGGTAACCATTAAGACGAATAGCGC
ACAGCACGCGTATTTCTATTTATCATTAGCGTGTAATATTGGAGTTATAATTACGGAATG
CAGATTACAATATCTGTTTTGCTCCCATGGCCTCGATCAATTGCATTGTGTCCTCATTTG
TCAACTGAAGCATTGCAATTGGCATTATTATTCCATTATCGAAACAAAAGCTGGCGTTAC
GCGTGGTTGGTCCACGGAGACCAATCTCAGTCACGCGTTTGGGTGTCGCTTTTCGTCACT
TCGATTTTTAAACAAAATGTGAGATATCGTTCACCATCTGACAATTTTTATATTGTAAAC
CAACATTGATCATTCGAA------------------------------------------
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-----------------------------------------------------------A
CTAGTAGGTAAAGAAAAAACTAAAAAATTACTATTACATCGATGCAAACATTGGCTAAAT
ATGAAGTTGGGGTGTTGCGTTTAATCTTTGCTAGTACAGTATTGTGGTTTACTAGGTTGT
TTAGACTTTAGGTAAAATTAAAGTTAAAACAAAAATTGTAGCAGCAACACACGAAGGATC
TGCACAGCTCGTTAATAGGTATGTGTAATTATTTTTACTGATAAAATTAGCATTTAAGAG
TAGCCGCTGCGGCATTGGTATTCTGTTTCTATTTTTATATTTAGTCATTTTGATAGTAAT
TCAACATCAATTAAATTAACGTACCATTATTATTATTCCTACCAATGTTTACCTAAAATT
CAAGCAGATACATTTGTAATTAACCATATAACGTTTATTATTCGATTTACACGCGTATTT
GAAGGACTGAAAATGAAGTTTGCTTCAATTTAGGAATCTCATTGTACGTCGATATAGCTT
TGCGAATTTGGGTAAAAAGCGTTACACAACAACGGCTTATTAGAACCTTATTTACTGCCA
AGACTATTAAATACTCTTTTGTTAGAAAGGTGTAAGATGAATTCGTACATGAAATACCCG
GT
