Login
Help

CIS-REGULATION

Submit your Data

  1. Region 'REG00000006'

Cis-regulatory Region

Name

Ci-MLC2 -438/205

Short name

n/a

Region ID

REG00000006

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Kusakabe team (2007-01-21)

Annotator

Delphine Dauga (2010-01-15)

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

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000075: pMLC2 -438/205::EGFP

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
1 n/a TTCTCACGTCACT [7,191,222 / 7,191,234]
2 n/a TGATGACGTCATA [7,191,253 / 7,191,265]

Sequence

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

This sequence was found using a blast on the JGI V1.0 with the sequence included in the publication listed bellow, like the sequences of the motifs.

Show sequence

Length: 643


GCCAAACACGTAAGGAATACCCCGATGGTACATATTGGTAGCATTATGAATGCTAATACA
CAATGTTATTGTATGGTGAAAAGTGAAGAACTTTTCACCATACAATACACTTTTTAGTGT
AAAACTGTTTATACAAATTTAATTTCGAAATATTTAAAAATCATTTTCCATTCGCAAAGT
GTGTAGTATCCAAGAACGTGACTAAATAAATATGCGCTCAAAACTTTACTCTTACTTTTC
GAGGCTCATGCTGGTTGCGTTCAAGGACCAGAAGAAACACATAATCACCCGACCAAAGCG
AAACAGCTTTGTTCACAACTAATCAAATTTCTTCCACCGCCTGTTCTCACGTCACTAATT
CCGCCTGTCTATTCTGATGACGTCATATATCAGGTCATTATGTCTGTTATAAAAGCGCTG
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

Sierro et al. (2006). DBTGR: a database of tunicate promoters and their regulatory elements. Nucleic Acids Res. 34(Database issue):D552-5

Back to Top