- Region 'REG00000854'
Cis-regulatory Region
Name
Ci-Tbx6b -2339/-13 all Macho1 mutated
Short name
n/a
Region ID
REG00000854
Status
Not Curated
Origin
engineered region from C. robusta formely Ciona int. type A
Type of Activity
regulatory_region
(extended_promoter)
Author
Jamie E. Kugler (2010-07-08)
Annotator
Clara Degos (2010-07-08)
Curator
Clara Degos (2010-07-08)
Region upstream of Ci-Tbx6b from -2339bp to -13bp. This region can drive muscle expression.
Region named 2.4kb Ci-Tbx6b CRM in the paper.
Binding sites are present in this region : 3 macho1 binding sites, one E-box site, one CREB binding site and one T-box site.
In this region the three Macho1 sites were mutated. These mutations lead to a loss of muscle expression at the early stage of development.
ANISEED coordinates are different from the coordinates in the paper. Coordinates are based on KH transcript model.
Modification of Ci-Tbx6b -2339/-13 by substitution
- Ci-Tbx6b -438/-295 REG00000640 [ regulatory_region (enhancer) ]
- Ci-Tbx6b -2339/-13 REG00000853 [ regulatory_region (extended_promoter) ]
26,96029,285
| Motif Name | Binding Factor(s) | Sequence | Position in Region | Comment | |
|---|---|---|---|---|---|
| 1 | bHLH | n/a | CAACTG | [-2,290 / -2,285] | |
| 2 | T-Box | n/a | TCAGTGTGAC | [-2,219 / -2,210] | |
| 3 | bZIP | n/a | TGACG | [-2,213 / -2,209] |
Aniseed Coordinates: [26,960 / 29,285] on scaffold KhS654
The sequence was found thanks to the primers used in the paper.
The Macho1 sites were mutated (Macho1 site C CAGCGGGGTCC=>CAGCTTTGTCC, Macho1 site B GGCTCCCATAG=>GGCTTTTATAG, Macho1 site A GACACCCGATG=>GACATTTGATG).
Show sequence
Length: 2,326
GAGACTCGTTTTCGATGCCACTTTGATCTTAACGAGTCATTAACAAGGACAACTGCTTCC
TGATAAGCCTCCGAACTCTCCTGCTGATTCAAGTCTAGCGCATGCAGAACACTCCAAAAC
TCAGTGTGACGCATACCGTCTTGCATGTGGCGCGTTGGTTTGATGAAATCGCTTTAAAAA
TGTGTTTGATAATTTCATTATTATGGTTTGATGTAGAATAGCCTTGTTAGTTTTTTTTAT
TAAACAGCTTCGTTTATAGAGATTTAAAGGTAATTTTGACAACTAAGTTGACAGTCCGCC
ATATGAAGCCATTTCCTAAATATGTTATGTGTTAAGTCTATTGTTATTAGTAGACAATAG
TTATCGTACGTTGTTACCAATGTCACCTTCGCTTTTGCAAGCTTGTTACGTTGTTAACCA
GTTGGGGATCATCCGTTTAAGAATGCGACATAAGTCTGTCACAAAAACTAAAATTTTATT
ATATAGTGCTGTGGGGTAAGATGGGACACATTCAGAACATAATATCCTTATCGTGTTTTT
AAACAATTAACAACGGTATATAGGATTCGTAAGAAAACGGTTTTCCATTTCTTTGAATGT
TCTTCTTAAAAATAGAACGAAAAGGTCTTCAAAAAAGTAACGATAATTGTAAAACGTTTC
CATCGATGGCTAAAACCACATACGTTTAGGTTAAACCCTTATTCTACTCAAAGTTGCCTA
ATAGTTTTAAAAATATTTTAAATCAATTTGATTAAAACTAATATATGGGTATGTCTTGCA
TAGTTTTATATACCGCCGTATTTAGTGTAGGCCTCTTATGTATTATTGTAAGCAGAAAAC
TAGCCAAAATATTGCCCATAATATAGCTCGGATTATTGTTCATTCTATGTATATTTCGCA
CTTTAATGGATAGGTTCGAATTTGATTTAGTTTAGTGTATCAATATAGGTTTGGTCTTTG
TGGTGGATCAAAAAATAACGCTTACCGCTTTTCCTTATTATCGCACCAACACCGCTTGCA
ACCAGCAATTTCGAAAGGTTACCGCAGCTTTGTCCTCATTACTTATCAACAGTTGTTCGG
TAATTACGCCATTAAACTTGACACGCGTACTCCGTTGATTACTTTCTCGCTCACAAAAAC
TACGTGGAGCTCAGTTTCGATATACCTTATTTTTAAACTAACGAAAGTAATTTATAGTAG
GGTGGGGGAAGATGGGACACATTTTCAATCTATTTTCTCCTCCAATTTGGTAGTAAACAA
ACATTCAACGATATTTTATAAAACTTTATCCTCACGGCTTTTATAGATCGTTGTCAATTG
TTTAAAACACGATCAGGATATTTGGTTATTATGTGTGAAAGGTGTCCCATCTCCCCCCAT
CCTACTATACAAATACTACATATGTTATTTAAAATTGCCAGGGCAAAACGTGTATATTCG
TACAGTTAGCACACTGATCTACTAAAGATTTTAACATGTTCCTTAAATGTCTCCCTGACA
TTTGATGCATAGTTTGTTTTAAAACTGGGCTTTCGTGATGTTGAAAAATATCCTGAAAAT
GCCGGGATAAGCTGTATTAATATATTTGTATTCCGACAAAAGAAAATTAAACTGAACCCT
TATGTAGCTAAGTTTAATCAGAAAATTATAGTAATCTGTATTTTAAATAAATTAAAAAAA
ATATAATTATGTTCAAGTAGTTTAGAAGCTATTAATTGTCAACTATAAGTTGGATCATTT
TTATGGGTATATTTGTAGGCACATTGTTGCATCGCCATTTTTTTTACTGTAGCGGTTTGA
TTTTTTTCGAAGGCTGTTTTGTGTTTTTCAAACTTCGGTGGTGCATTTGGATCACATTTT
ACCATCTATATCCGTAAACGAATTCAAAACAATATATGCATGCATAGCGGGCGCTTGCGG
GTGGGTTATAGGCAAAAACTATCCATGTTAATAATGTAACATTTTCCATTTTTAAACGGT
GTGAAGCGCGTTGCGATACAATACTATATATTTAGCGGGGATGCAGCATCTTCAGTGAAT
TTTGAGGTAAACTGAAATACCCTATGCATTCAACTTCAAATGGATTGATGGGAATGGACA
TCAGTTCGGTTGTGGTAAGCATAAGTGGTGTACTGAAACACTACCAAAATGTGCCTTTTC
TGCCTTATGATCGCTGAATATTCTTTGTATTATTCGCGTTCCACCAGGGATTATAACATG
AGATGGAAATACATATGGTGGTGGTGGCTTCTGTGACAGAGAAATGCTCCATTTATGTAA
TACGAATCCTTAAATTGGGCGACTGGTTGTGAAGCGACGCTACATT
