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CIS-REGULATION

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  1. Region 'REG00000635'

Cis-regulatory Region

Name

Ci-tropomyosin 3 -500/32

Short name

n/a

Region ID

REG00000635

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Kusakabe team (2010-01-18)

Annotator

Delphine Dauga (2010-01-18)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Conversion to aniseed format of DBTGR database entry from Kusakabe team.

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

Hierarchy of Regulatory Regions

Modification of Ci-tropomyosin 3 -953/82 by deletion

Regulated gene(s)

KH2012:KH.C3.661 (TPM1; TPM3; TPM4)

Construct(s) made to test this region

CONS00000604: pCi-tropomyosin 3 -500/32::EGFP

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

4,367,0864,367,617

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

Sequence

Aniseed Coordinates: [4,367,086 / 4,367,617] on scaffold KhC3

Sequence from JGI V1.0.

Show sequence

Length: 532

TGAAGTAATGTGCTGCTGTGGAGTGAGAATCGACTGTGTGTGATGCATAACAAGGCAACT
TCGCTCTTATATAGCCAATGTAGAAGTGATAATGCTTGACGTCATCAATTAGGTCATTCT
ATATAGAGGTGAGGAACAGTTGTGTACACTTTCGATGTTGGAGAATCGTTTAAACATTTT
TACCAACAAGTTGTACTTAAATATTACGTAGGCCTACTATGATGTTTTCTACAGTTTACA
TATAACCAAACATGATAATAGTTTCGTATATGCTTTGTTTTTGCTGGTTTGTCTGTTGTC
CATCCGAACAATCAGACGGCTGTCATTCTCCGTGTTAATGACGTAGTAAGCCTGCTGCAA
GATTGCTGTAAATAGTTCAAGAAGATAAGCATACATGTACGCCAAGCGTTTTACAGTTTT
TCATATTTCAAATACAGAAAGTGTATTCTTACACTTGATTGAAAATTATCTTCATATTTA
AAGGTACGGTAGATTAATTAATTCGCAACAAGCCGACCTGCGATTCTTTAAT

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

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