Aniseed - Cis-regulation

Region 'REG00000801'

Cis-regulatory Region

Name

Ci-Nut2 -1068/+146

Short name

n/a

Region ID

REG00000801

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Kotaro Shimai (2010-06-30)

Annotator

Clara Degos (2010-06-30)

Curator

Delphine Dauga (2011-08-11)

View position in WashU

Description

Region upstream of Ci-Nut2 from -1068bp to +146bp (named CiNut2-1196 in the paper).
Be carefull, the coordinates in the paper may be different from ANISEED coordinates.

Hierarchy of Regulatory Regions

Ci-Nut2 -1068/+146 REG00000801 [ regulatory_region (extended_promoter) ]
- REG00000802 [ regulatory_region (extended_promoter) ]
- REG00000803 [ regulatory_region (complex_region) ]

Regulated gene(s)

n/a

Construct(s) made to test this region

CONS00000764: pCi-Nut2 -1068/+146:Venus:EGFP

Show in situ data

Overview of functional TF binding sites in this region

1,405,7851,406,998

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

Sequence

Aniseed Coordinates: [1,405,785 / 1,406,998] on scaffold KhC14

Transcription start site is based on the start of the first exon of the KH transcript model. Sequence found thanks to the primers used in the paper.

Show sequence

Length: 1,214

AATGAAAAATATGTCTCATATTGCCCCACCCTACTAGTTACAAATTTTTCGTTGGTATAT
GCGCTTTAGCACACAGTATAGCAGCGAAAAACTTGTTCGATTACGAAAGAGGTCATCATA
AGGTGAATCCTGATTACAGTTTTCCGAGTAAACATAGTTTTAATACTTCAATCTGCAGCG
TTAAATAGAATGTTAAAAGTGAACTTTGCACGACTCTAGCCTTTATCAATATTTAAACGA
GACGGTTAAACTAAGCGTAAAAGTTTGACCCACGTTTGACCGGCACCACATAAAACGTAT
ACAGACATGATGTCAAATTTATGACGAAATCGCGATATATAAAAACGTACGCAGCTCTGA
GTCACACATAGTGATGGTATACGGTGATAAACGCGTGTTAAAGAGTGAAGTTTTACTTAT
GTATGGTAGGGTGGGGAAAGATAGGACACGTGTTTATTTTCTTTTCTCGTCCCGTTTGGG
AGTAATTAAAAATGTTTAACGTAATATATAACTGTAGATCAGCGATTTTAAAACGGCGTT
GTTAATTGTTAAAAACACGACCAGGAAATATGGGTTTTAGGTGGAGAGGTATATCCTATT
TCAACCCACACCACTATTTTAAAAATACAGGATTATAGTAGAGTGGGGGAAGTTGGGACA
CCTTTAGCACAGAATATCCAAATATCTTGATCGTGTTTTAAACAATTAACAACGTTCTAT
GGGAGTCGTGAGGATACGGTTTTACAATTCTTTGAATGTTCTTTGTTTACTAGCAAATGA
GGCGAGGAAATAGAATGAAAAGGTGTCCCATTTTCCCCCATCCTACTATATATTAAAAAT
ACGTTCAATTTAAGACCCTTTTAAAAAACATTTATGGTCATAGTATATGTTATAATTTTA
GACTGCTTTTAGTTGACGCCCTCGGTCTCATACCTATATACGTACTTACACGTCTATATT
AATCTGTGTACGGTACATTAAAAGCGCTTAAGGCAGCGCGAAATTGACAACCTATAAATG
ATGAAACCATTTGATAATTTATATAATTATTCCTAAATTAATCTGAAGTTTTAAGAAGTG
GCCATTACAGCAACCAATTACTCCGCGTAAAGTATCGCATTTGTTTTACACTTAGAAGAC
GTACGGGATTTTAAAATGGAGCTGGAATTCGGTATAACACGAACTGCTTATGGAATCGCA
ATGCTTATGATGGG

Reference(s)

Shimai et al. (2010). Upstream regulatory sequences required for specific gene expression in the ascidian neural tube. Zool. Sci. 27(2):76-83