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CIS-REGULATION

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  1. Clone 'cign032d09' > 
  2. Clone 'cijm005k09' > 
  3. Clone 'cima880829' > 
  4. Region 'REG00000802'

Cis-regulatory Region

Name

Short name

n/a

Region ID

REG00000802

Status

Curated

Origin

engineered 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 (2010-07-22)

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). Upstream of this region, a part of the Ci-Nut1 region (from -123bp to -56bp, and named -119/-66 in the paper) was added to the sequence. This part of Ci-Nut1 regulatory region contains a ZicL site, able to drive expression in neural tube.

Be carefull, the coordinates in the paper may be different from ANISEED coordinates.

Hierarchy of Regulatory Regions

Modification of Ci-Nut2 -1068/+146 by insertion

Regulated gene(s)

KH2012:KH.C14.4 (ADRB2; P2RY12; RGR)

Construct(s) made to test this region

CONS00000765: pCi-Nut2 -1068/+146 & Ci-Nut1 -123/-56 added:Venus:EGFP

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

1,405,7851,406,999

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(C2H2) n/a CATGCTGTG [-1,019 / -1,011]

Sequence

Aniseed Coordinates: [1,405,785 / 1,406,999] on scaffold KhC14

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

Show sequence

Length: 1,281


TTCACTGCGTTGTCTAAATCCATGCGAAACAACAAAATAAGTCGCAAGACATGCTGTGCG
TGTATTGAATGAAAAATATGTCTCATATTGCCCCACCCTACTAGTTACAAATTTTTCGTT
GGTATATGCGCTTTAGCACACAGTATAGCAGCGAAAAACTTGTTCGATTACGAAAGAGGT
CATCATAAGGTGAATCCTGATTACAGTTTTCCGAGTAAACATAGTTTTAATACTTCAATC
TGCAGCGTTAAATAGAATGTTAAAAGTGAACTTTGCACGACTCTAGCCTTTATCAATATT
TAAACGAGACGGTTAAACTAAGCGTAAAAGTTTGACCCACGTTTGACCGGCACCACATAA
AACGTATACAGACATGATGTCAAATTTATGACGAAATCGCGATATATAAAAACGTACGCA
GCTCTGAGTCACACATAGTGATGGTATACGGTGATAAACGCGTGTTAAAGAGTGAAGTTT
TACTTATGTATGGTAGGGTGGGGAAAGATAGGACACGTGTTTATTTTCTTTTCTCGTCCC
GTTTGGGAGTAATTAAAAATGTTTAACGTAATATATAACTGTAGATCAGCGATTTTAAAA
CGGCGTTGTTAATTGTTAAAAACACGACCAGGAAATATGGGTTTTAGGTGGAGAGGTATA
TCCTATTTCAACCCACACCACTATTTTAAAAATACAGGATTATAGTAGAGTGGGGGAAGT
TGGGACACCTTTAGCACAGAATATCCAAATATCTTGATCGTGTTTTAAACAATTAACAAC
GTTCTATGGGAGTCGTGAGGATACGGTTTTACAATTCTTTGAATGTTCTTTGTTTACTAG
CAAATGAGGCGAGGAAATAGAATGAAAAGGTGTCCCATTTTCCCCCATCCTACTATATAT
TAAAAATACGTTCAATTTAAGACCCTTTTAAAAAACATTTATGGTCATAGTATATGTTAT
AATTTTAGACTGCTTTTAGTTGACGCCCTCGGTCTCATACCTATATACGTACTTACACGT
CTATATTAATCTGTGTACGGTACATTAAAAGCGCTTAAGGCAGCGCGAAATTGACAACCT
ATAAATGATGAAACCATTTGATAATTTATATAATTATTCCTAAATTAATCTGAAGTTTTA
AGAAGTGGCCATTACAGCAACCAATTACTCCGCGTAAAGTATCGCATTTGTTTTACACTT
AGAAGACGTACGGGATTTTAAAATGGAGCTGGAATTCGGTATAACACGAACTGCTTATGG
AATCGCAATGCTTATGATGGG

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

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