Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-GATA -1010/-76

Short name

n/a

Region ID

REG00000335

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Yukio Ohtsuka (2007-12-18)

Annotator

Émilie Carmona (2010-06-07)

Curator

Delphine Dauga (2010-06-07)

View position in WashU

Description

The region corresponding to Scaffold_696:17369-18302 is active in a-epidermis cells (lateral and ventral).

Scaffold_696:17369-17569 : activity in mesenchyme, possibly includes basal promoter region of Gata-b.

Scaffold_696:18098-18302 : activity in a-epidermis cells when placed in front of pfog minimal promoter.

Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Ci-GATA -1010/-76 REG00000335 [ regulatory_region (extended_promoter) ]
- Ci-GATA -278/-76 REG00000336 [ regulatory_region (RNApol_II_core_promoter) ]
- Ci-GATA -1010/-804 REG00000337 [ regulatory_region (enhancer) ]

Regulated gene(s)

KH2012:KH.S696.1 (GATA2; GATA3; GATA4)

Construct(s) made to test this region

CONS00000320: Ci-GATA -1010/-76::LacZ

Show in situ data

Overview of functional TF binding sites in this region

17,36918,302

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

Sequence

Aniseed Coordinates: [17,369 / 18,302] on scaffold KhS696

Sequence from JGI V1.0

Show sequence

Length: 934

GAGCGTGGAAATGAAACTGAAACAATTTCAAGCATATTTTATTTTTAAAGGTATATTTTT
AGTTCTAAATTATCGTTTGTTTTGTTTACTATACGATTGTGACGTAATAATCATAAAATC
GTAACAATATGGCGATGCAGCGCAACGCGTTTCGATAACTTGGATATTACGTCATATTTC
CACCATTCATACGTCACAAACTAATTCTATTTGAGTAATATTTATAAACTTTGCAAATTA
TTTCGGTTTTAACTTAAATTTTTACAAAATAGAAAAAAAATTAAAATAAAACTTTAAAAA
AACGATCATAAAATCTATGATATCTCTATCTGAAACTTTCCGGAACTGAAATTAGAAATA
ATTAACTAAATAAAAGCAACTTTCCCCCAAACAGCAAAGACCCCTACACACCTGAAGCCG
CCGTCGTCTAACCTGATGCAACAAACCGAGACGATCGAACTCTCGCCTTATTTTCGACGC
TTTTTTTCCACCAAACCAAAACGTCGCCATATTGCTAAGCTATTTAATCGGCAAAATGAA
AGATTTCATAAAACATTAAAACTTTGCGAAAAGTATTAAAAATAAACGAAGAAAAACTAC
TTTCTGACTCCCTAGTTTTGCAATCTTGTTAAAAACTCTTGAAAATTAAAATATTATAAT
CTCAAATTCTCGACAAATATTCGTTTAAACTTTGATTGTGATTAAACAAAGTAACAAAAG
TTCGGGTTCGACGTAACAATTGTAATTTGTGACGTAACAATCGTAATTTGACGTTTGTTG
ACTTTCGCGCGTTATCTTTACAGTTTTGTTACGCAACAATTACCGTCAATTGTTTAACCG
ATTTGAGACATTATGACATCACAGAGCCGTCAATCGGCAAACAAACGATCCAAAAGTTTC
AGAATTTGTGGAAAATGAACCGAAAAGTCGCGAA

Reference(s)

Khoueiry et al. (2010). A cis-regulatory signature in ascidians and flies, independent of transcription factor binding sites. Curr. Biol. 20(9):792-802