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CIS-REGULATION

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  1. Region 'REG00000085'

Cis-regulatory Region

Name

Ci-MLC2 -438/205 44bp mutated

Short name

n/a

Region ID

REG00000085

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Kusakabe team (2007-01-28)

Annotator

Clara Degos (2010-07-12)

Curator

Delphine Dauga (2010-04-08)

View position in WashU

Description

The M2 motifs present in the enhancer sequence upstream the +1 of transcription of the Ci-MLC2 gene are necessary and sufficient for the expression in the muscle cells.

Be careful, coordinates in the paper are different from ANISEED coordinates. We took the KH transcript model as reference.

Coordinates in the paper : -502bp/+141bp

Hierarchy of Regulatory Regions

Modification of Ci-MLC2 -438/205 by substitution

Regulated gene(s)

KH2012:KH.C1.20 (MYL1; MYL4; MYL6B)

Construct(s) made to test this region

CONS00000076: pMLC2 -438/205 44bp mutated::GFP

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

7,190,8797,191,521

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

Sequence

Aniseed Coordinates: [7,190,879 / 7,191,521] on scaffold KhC1

This sequence was found with a blast on the JGI site with the sequence includes in the publication listed bellow. The two motifs M2 and the 18-bp sequence between them had been mutated.

Show sequence

Length: 643

GCCAAACACGTAAGGAATACCCCGATGGTACATATTGGTAGCATTATGAATGCTAATACA
CAATGTTATTGTATGGTGAAAAGTGAAGAACTTTTCACCATACAATACACTTTTTAGTGT
AAAACTGTTTATACAAATTTAATTTCGAAATATTTAAAAATCATTTTCCATTCGCAAAGT
GTGTAGTATCCAAGAACGTGACTAAATAAATATGCGCTCAAAACTTTACTCTTACTTTTC
GAGGCTCATGCTGGTTGCGTTCAAGGACCAGAAGAAACACATAATCACCCGACCAAAGCG
AAACAGCTTTGTTCACAACTAATCAAATTTCTTCCACCGCCTGCCAGTCGACAGACAACC
GTCGACACTGCGTCCCAGTCGACACGCTATCAGGTCATTATGTCTGTTATAAAAGCGCTG
GGTCGAAGTTTAACAGCATTCAGTTCTGCTTAAGCATAATCTAGCAAGCATCAAACATCC
TTCAAGACGATAAACTATTATAATGGTAAGTGTAGTTGTATGCATTGCTGGGGAAGCACC
AGTAGTAATATACCATACCGATAAAACTAGTTTAGATTGTTTAGAATTTTATGTAGGATA
AGCCTAAAACTTAATAACAACTGTCGATTTTGTCTACAGGCAG

Reference(s)

Kusakabe et al. (2004). Computational discovery of DNA motifs associated with cell type-specific gene expression in Ciona. Dev. Biol. 276(2):563-80

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