Aniseed - Cis-regulation

Region 'REG00000623'

Cis-regulatory Region

Name

Ci-troponin I -757/66 CRE mutated

Short name

n/a

Region ID

REG00000623

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Christopher D. Brown (2009-12-13)

Annotator

Clara Degos (2009-12-13)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Transcription start site is based on the start of the first exon of the KH transcript model.

Construct #1543 in the paper. In this construction the Tbx6 site was absent and the CRE site was mutated.

Hierarchy of Regulatory Regions

Modification of Ci-troponin I -765/66 Tbx6 mutated 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

CONS00000593: pCi-troponin I -757/66 CRE mutated::LacZ

Show in situ data

Overview of functional TF binding sites in this region

1,684,4421,685,254

	Motif Name	Binding Factor(s)	Sequence	Position in Region	Comment
1	bHLH	n/a	CAGCTG	[-742 / -737]

Sequence

Aniseed Coordinates: [1,684,442 / 1,685,254] on scaffold KhC11

Transcription start site is based on the start of the first exon of the KH transcript model. In this construction the CRE site mutated was remplaced by "-"

Show sequence

Length: 823

TG--------TACTGCAGCTGTTATCGCCTGAGCAGCAGTGTTCCCCGTGATTTTTTGCT
GTGATTCAAATTTATTGATTACAAATATAAAAATTATATTATATTATACTTAATCAATGT
AAAGTATTGATATAAGCATATTTCGTTAATTTAACCGAAATTAGCTATAGTTTAAGCAGT
TTCCAGAGGTTTACATTAGTACGGCGGCAACACTCGTTCTATATTAAATCCAGACAACAA
GAACTTCTTCTTCGTTTAGTCCTTCGATATTCTATTTAAGGGAGCTTACAGCATCCATCC
AACATCGGTAATCAAGAATCTGTTAACCTTGTTTAGTCACAGAGAAAGGTTCATGCATTT
AAGAACCCCTTAGTGAATTTAAAGAATTTTCTTGTAGAAAGGGCCGCATAGTGGCCATGA
ATACTATGGTTAACTATTAGCTTAGTTGAGTTTATCATGCTCAATATTTTTATCATTTAG
ATTTTCTGAAGGGTTTAAAATTAAAAGCCTATTAAGCATATTTATTTAAATATAAGTTTA
TCCTCTCAGGGTTGTGATAGTGATAACTTATCAGGATTTATAACTATAGCGCAATACTGA
ATTTATCAAGCTGATAAGACTACCAGTACCTGCGTAAAACCTTTAGGAAGTCTAAATAGA
TACTTACTCTTCAGTAACTGAATGCAACCTGTATAAACGGAATATTGCAGAGTTATATTT
TTATCGTTTATATCCTTGTAGTTCACTAATGCATTTTCATCTTCAGCAGTATCAATTGGT
TAAGTAGGTCTTAGTTTGGCTTAGCAACACAGCAAAACAGCAC

Reference(s)

Brown et al. (2007). Functional architecture and evolution of transcriptional elements that drive gene coexpression. Science 317(5844):1557-60