- Region 'REG00001318'
Cis-regulatory Region
Name
Cirobu.REG.KH2012.C9:35562-36707|Fkbp9
Short name
n/a
Region ID
REG00001318
Status
Curated
Origin
natural region from C. robusta formely Ciona int. type A
Type of Activity
regulatory_region
(complex_region)
Author
Diana S. José-Edwards (2018-05-08)
Annotator
Marion Gueroult-Bellone (2018-05-08)
Curator
Marion Gueroult-Bellone (2018-05-08)
- Cirobu.REG.KH2012.C9:35562-36707|Fkbp9 REG00001318 [ regulatory_region (complex_region) ]
35,56236,707
| Motif Name | Binding Factor(s) | Sequence | Position in Region | Comment | |
|---|---|---|---|---|---|
| 1 | T-Box | n/a | gtgcaa | [35,668 / 35,674] | This is the third of the 3 Brachyury binding sites located in the notochord enhancer of KH.C9.778. Its mutation does not affect enhancer activity in the notochord. Deletion of the region containing 2nd and 3rd Brachyury binding sites inhibits enhancer activity in the notochord. |
| 2 | T-Box | n/a | gtgaaa | [35,680 / 35,686] | This is the second of the 3 Brachyury binding sites located in the notochord enhancer of KH.C9.778. Its mutation or deletion inhibits enhancer activity in the notochord. |
| 3 | T-Box | n/a | taacac | [35,688 / 35,694] | This is one of the 3 Brachyury binding sites located in the notochord enhancer of KH.C9.778. |
| 4 | bHLH | n/a | cacgtg | [35,691 / 35,697] | This is one of the 3 E-box binding sites located in the notochord enhancer of KH.C9.778. |
| 5 | bHLH | n/a | catttg | [35,704 / 35,710] | This is one of the 3 E-box binding sites located in the notochord enhancer of KH.C9.778. |
| 6 | bHLH | n/a | caattg | [35,725 / 35,731] | This is one of the 3 E-box binding sites located in the notochord enhancer of KH.C9.778. Its mutation does not affect ehnacer activity. |
| 7 | ZnF_(C2H2) | n/a | ggtgg | [35,730 / 35,735] | This Sp1/Klf binding site is located in the notochord enhancer of KH.C9.778. |
Aniseed Coordinates: [35,562 / 36,707] on scaffold KhC9
This 1151bp sequence, located in the upstream region of KH.C9.778, drives reporter gene expression in notochord. It contains 1 Sp1/Klf, 3 E-box and 3 Brachyury putative binding sites. This sequence was retrieved using ANISEED Blast tool, thanks to the information provided in FigS1ab and TableS5 of Jose-Edwards et al. 2015.
Show sequence
Length: 1,146
tgaaggttccacacatagtctcattcaaccacgcacccccccccccccccccgcatacca
gacttccatctaaccagacaccggtattacagcatgtctagcttttgtgcaataaggcgt
gaaaagtaacacgtgacttcaacatttgctcaatgctggaaagcaattggtggataagtt
gcagcgtttgcttcactgacccagtaatgtattcctaatctaaatatattgtaattcaat
atatgtccccaattaattacgaccttgtgattaatatatgctatctatgtttatttaaaa
acccatagaaatcttatatatacatattcacatagaaatcatatacatttgaacatagaa
atcctataatatcaatcctataaaacatagacatcatatacttttacatagaaatcatat
atacttgaccatttattattactcatatttacaaagccattacataactttttgtatgaa
tgtagttaatttatcctgatgctgcggggcaacaatcatccttataacacggttacctta
ttgcattacacctcattagtcatttgggcaactataaatggctaacaacctattactgac
cactgagttggatcaattgttgttttacgctcaaggacacatacagcatcaatggtaaca
gcataataatactttcaaatccaagaaacaaccacaactatgaacgtgtattttacattt
ttgagcgatttttaataaaaatgacaataattgaaagcgcaacacatgcacaaggagaaa
tacgacgtcatataaatgacatgtcgtgttttgttcattcattcaacataggggtcatat
ttggtgaccaatatacaagtgtagtagggcgacgtctatttagtttgtgaattgaattaa
ctttaactttatgtcggggcaacgacagcccttattacacgggtttaacacgtgctcgct
tacgagttaccatgtatgtaactttgttgatgattgattttggtttggctgacaatttat
acaatccattagtgaccactgggttggagcaattcaaatataaacaaggtttatgaagtc
gacaatgtgaataataatgagcattgttacgtcatatgtttgtttacactctactgttac
gtcatc
