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CIS-REGULATION

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  1. Transcript 'Moocci.CG.ELv1_2.S36...' > 
  2. Region 'REG00000642'

Cis-regulatory Region

Name

Ci-TNC3 -188/-47

Short name

n/a

Region ID

REG00000642

Status

Curated

Origin

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

Type of Activity

regulatory_region
(enhancer)

Author

Albert Erives (2010-04-13)

Annotator

Clara Degos (2010-07-12)

Curator

Delphine Dauga (2010-04-13)

View position in WashU

Description

Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.C6.244 (CALM1; TNNC1; TNNC2)

Construct(s) made to test this region

CONS00000612: pCi-TNC3 -188/-47 pbra::LacZ

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

356,407356,552

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 bHLH n/a CAACTG [356,407 / 356,412]
2 T-Box n/a AGTTGACAG [356,420 / 356,428]
3 T-Box n/a ATTGTCACCT [356,493 / 356,502]
4 bHLH n/a CTTCCATT [356,544 / 356,552]

Sequence

Aniseed Coordinates: [356,407 / 356,552] on scaffold KhC6

The sequence was found in the publication and blasted against JGI V1.0

Show sequence

Length: 141


CAACTGTATACAGAGTTGACAGCATTTATCATTAGGATAAACATCTCATCGCCCGTAATC
TGGTGAATCCATCATCATACGTCATTGTCACCTTACGATACAAGGTTGACACCTCCAATG
TACGAAACTTTTTCTTCCATT

Reference(s)

Erives et al. (2009). Non-homologous structured CRMs from the Ciona genome. J. Comput. Biol. 16(2):369-77

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