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CIS-REGULATION

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  1. Region 'REG00001114'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C8:2620481-2622953|Foxd.b

Short name

Foxd.b (-2441pb)

Region ID

REG00001114

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Izumi Oda-Ishii (2017-01-31)

Annotator

Marion Gueroult-Bellone (2017-09-03)

Curator

Marion Gueroult-Bellone (2018-03-13)

View position in WashU

Description

The 2441pb upstream sequence of Foxd.b drives reporter expression specifically in the anterior and posterior vegetal hemisphere. It contains at least seven Tcf7 binding sites.

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.C8.396 (FOXD1; FOXD3; FOXD4)

Construct(s) made to test this region

CONS00001083: p.Cirobu.REG.KH2012.C8:2620481-2622953>GFP

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

2,620,4812,622,921

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 TCF/LEF n/a tttg [2,621,699 / 2,621,703] One of the 5 Tcf7 binding sites located on the sequence localized -1241/-1042pb upstream of the TSS of KH.C8.396 (Foxd.b). These TFBS seem to be very important for enhancer activity of this upstream region.
2 TCF/LEF n/a ttt [2,621,748 / 2,621,751] One of the 5 Tcf7 binding sites located on the sequence localized -1241/-1042pb upstream of the TSS of KH.C8.396 (Foxd.b). These TFBS seem to be very important for enhancer activity of this upstream region.
3 TCF/LEF n/a tttg [2,621,764 / 2,621,768] One of the 5 Tcf7 binding sites located on the sequence localized -1241/-1042pb upstream of the TSS of KH.C8.396 (Foxd.b). These TFBS seem to be very important for enhancer activity of this upstream region.
4 TCF/LEF n/a tttg [2,621,819 / 2,621,823] One of the 5 Tcf7 binding sites located on the sequence localized -1241/-1042pb upstream of the TSS of KH.C8.396 (Foxd.b). These TFBS seem to be very important for enhancer activity of this upstream region.
5 TCF/LEF n/a tttg [2,621,851 / 2,621,855] One of the 5 Tcf7 binding sites located on the sequence localized -1241/-1042pb upstream of the TSS of KH.C8.396 (Foxd.b). These TFBS seem to be very important for enhancer activity of this upstream region.

Sequence

Aniseed Coordinates: [2,620,481 / 2,622,921] on scaffold KhC8

Sequence retrieved via the tool BLAST of Aniseed, thanks to the supporting information of the article (S4 Fig.)

Show sequence

Length: 2,441


tacctaaacccaataacattcttggttactttgatgatatttacaccataataagtaaat
acccagatccaataacatacaattctctctatacaaaacatttctgtaacatgtattact
gtacacataatatctcatattttctataatcgtatttttaactaatttacaacgccattt
tatgcttgttaaaatacggttttataattccctagtattactaccaacgccccaacctta
aacaaaggtgtcaaacggtaggcaggtgttgtatagactccatacgtacacctaaaagtg
ttacaagtcccactttgcgagttcaaatgttggttaatagttttaaaatcacacaacaga
taatttatctgtgacgttgcagctcagtattaagaattgtgtcatgcaagttgtaagaat
gacaaaccaacctttcataatgtttacttcatcacaccgatgataaacttgttgacaact
gaaacaagatgagacgagaccgacattacttgatgttaattattatctttcatctttgat
caactttgacggtcaagattagctcgtaagtctctccttggtttgaactgtaatttagga
tatcgttttgaatacacaaccacacttatcgtttatgtaacactgatgttacaactaata
tttaaagtattactatttctaagctaaaatcagaacgatttatattaatgctaggtttga
gtactttgggcaaatcaggtatatggtaagatttgatatgattgtacatgttttcattct
cttttggccattttgctaggaagaaaaaacatttaaaaatgtatataacctattccacga
gttcaaaatatcgttgttgattgtttaaagcacgattggaaaatatgaactttgatgtgc
ttcattagacaatacataattcgtttttgattactgggcatatttgcgaacgaccagaca
gttaacctttggttccgtaactgccctgtatattccgcgcagtttttctaaaccttctct
cgcattccggtcgcgatggctggaatcgtattcgtacagttggagtcagctaggcggctt
atacgattgatttataccgtatgggtattacaatctgtttaccagatagctattttagat
caacaaacatcgtgtagaaagtaagacaacttttaagcagcagaacaaaataagagatat
tttgtttactttttttactttgtttatgttaagtaaagtttaatttcattaaagatgtta
gttcgactttaatcgtagcttagtttgactgatgtcgcgagtgattaggcgataagaagg
cgagaaatatcatcgatgtttgttcccgatatttggcggcgtttgtggcgtttgaaagag
gcgagttcgagtcgcgagtctcgatcttttcatctttatctcggttgaattgatttgtcg
tgaataaattgggaagttgtgtcgattggaacatcagttgcaagaatgagttgaacagtt
ggtccaattcaaacgttacttgcagtaaaacttgtgtggacaagttataacttaatacga
ggtgtatataaagtcgttagaattttacgaatcagttgacaaatataaataaaggtacag
gtagttttgttgaacattgcgacagtctgactgtgttttcagtttcgctaaatttctcgt
acggtaaaattgtttactaaaaaataagggcgtacgtaaatcaattctgggttgggtagc
tttaagcattacaataacgtacatattgcctgtttacaaatatagcagttatatttaaat
atatactaagaataaaggtgcagctcattcaaatttaatcgctttaccgattctctcaat
taagaataggagaaaacgcgtatttagataacatttaacgggaaacgactacagtcctaa
tattggaactacagacgttcaataaactcgttagcttgacatttatttcaatactgtttg
tgttacgtcacgggtatttttgagtcattattttaacgattggtcggattatttgaaaac
ctttaccacagtgtgttgttagaaaatagacgccatttttaccagcggaaccagcatttt
gccaaattcaaatttaataatttttttcagttgttttcaacattttgggacacttctcaa
aaaagcgaaatgttttttatgaaactcagtttttaaaaacagcgaaaacacgcatatttt
tgaacgcaaccattaatcgattaagttggacgtttttcttgtaaatgataaattaattag
ccttcttcttttgcttagaaaacattgtaatataatcttttgaaaaatctgttgctgatc
aacggaattataaacgagatctaggattcgaagaaaaaagcggttgctgggagaattgaa
gaagtggatttgaataaattgtcgcgttttgcaaagtgctc

Reference(s)

Oda-Ishii et al. (2016). A Maternal System Initiating the Zygotic Developmental Program through Combinatorial Repression in the Ascidian Embryo. PLoS Genet. 12(5):e1006045

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