Aniseed - Cis-regulation

Region 'REG00001552'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C11:1684372-1685258|Tnl

Short name

TnI 886bp upstream (Yoshida2017, DavidsonLevine2003)

Region ID

REG00001552

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Yoshida Keita (2022-11-08)

Annotator

Marion Gueroult-Bellone (2022-11-08)

Curator

Marion Gueroult-Bellone (2022-11-08)

View position in WashU

Description

This 886bp enhancer is active in the muscle lineage.

Hierarchy of Regulatory Regions

Modification of Ci-troponin I -1433/66 by deletion

Ci-troponin I -2014/66 REG00000514 [ regulatory_region (extended_promoter) ]
- Ci-troponin I -1433/66 REG00000620 [ regulatory_region (extended_promoter) ]
  - Ci-troponin I -775/66 REG00000621 [ regulatory_region (extended_promoter) ]
  - Cirobu.REG.KH2012.C11:1684372-1685258|Tnl REG00001552 [ regulatory_region (enhancer) ]
- Ci-troponin I -2014/66 Tbx6/CRE/MyoD mutated REG00000625 [ regulatory_region (extended_promoter) ]

Regulated gene(s)

KH2012:KH.C11.673 (TNNI1; TNNI2; TNNI3)

Construct(s) made to test this region

n/a

Overview of functional TF binding sites in this region

1,684,3721,685,257

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

Sequence

Aniseed Coordinates: [1,684,372 / 1,685,257] on scaffold KhC11

The coordinates are from Yoshida et al. 2017, but they do not correspond to the ones in Davidson and Levine 2003 (cited for this cis-regulatory sequence).

Show sequence

Length: 886

TGCAGGGCATCGCAATAACAGCGTCTGCTGCGTGTCAACTCGACAGCGGGGTAGGTGCTT
GTGACGTCATACTGCAGCTGTTATCGCCTGAGCAGCAGTGTTCCCCGTGATTTTTTGCTG
TGATTCAAATTTATTGATTACAAATATAAAAATTATATTATATTATACTTAATCAATGTA
AAGTATTGATATAAGCATATTTCGTTAATTTAACCGAAATTAGCTATAGTTTAAGCAGTT
TCCAGAGGTTTACATTAGTACGGCGGCAACACTCGTTCTATATTAAATCCAGACAACAAG
AACTTCTTCTTCGTTTAGTCCTTCGATATTCTATTTAAGGGAGCTTACAGCATCCATCCA
ACATCGGTAATCAAGAATCTGTTAACCTTGTTTAGTCACAGAGAAAGGTTCATGCATTTA
AGAACCCCTTAGTGAATTTAAAGAATTTTCTTGTAGAAAGGGCCGCATAGTGGCCATGAA
TACTATGGTTAACTATTAGCTTAGTTGAGTTTATCATGCTCAATATTTTTATCATTTAGA
TTTTCTGAAGGGTTTAAAATTAAAAGCCTATTAAGCATATTTATTTAAATATAAGTTTAT
CCTCTCAGGGTTGTGATAGTGATAACTTATCAGGATTTATAACTATAGCGCAATACTGAA
TTTATCAAGCTGATAAGACTACCAGTACCTGCGTAAAACCTTTAGGAAGTCTAAATAGAT
ACTTACTCTTCAGTAACTGAATGCAACCTGTATAAACGGAATATTGCAGAGTTATATTTT
TATCGTTTATATCCTTGTAGTTCACTAATGCATTTTCATCTTCAGCAGTATCAATTGGTT
AAGTAGGTCTTAGTTTGGCTTAGCAACACAGCAAAACAGCACCATG

Reference(s)

Yoshida et al. (2017). Hox-mediated endodermal identity patterns pharyngeal muscle formation in the chordate pharynx. Development 144(9):1629-1634

Davidson et al. (2003). Evolutionary origins of the vertebrate heart: Specification of the cardiac lineage in Ciona intestinalis. Proc. Natl. Acad. Sci. U.S.A. 100(20):11469-73