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CIS-REGULATION

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  1. Region 'REG00001197' > 
  2. Transcript 'Moocul.CG.ELv1_2.S62...' > 
  3. Transcript 'Moocci.CG.ELv1_2.S11...' > 
  4. Region 'REG00000061' > 
  5. Region 'REG00000057'

Cis-regulatory Region

Name

Ci-Sna -1037/codon 15

Short name

n/a

Region ID

REG00000057

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Albert Erives (2006-10-01)

Annotator

Patrick Lemaire (2007-11-06)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Region between -1.037kb upstram of start of cDNA AF002987 and 1,3 kb downstream (corresponding to the midle of exon 2 in the coding region).

This region was named -1037bp in the paper (Erives et al 1998).

Hierarchy of Regulatory Regions

Modification of Ci-Sna -2200/codon 15 by deletion

Regulated gene(s)

KH2012:KH.C3.751 (SNAI1; SNAI2; SNAI3)

Construct(s) made to test this region

CONS00000044: pCi-Sna -1037/codon 15::NLS LacZ

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

5,678,2465,680,582

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 bHLH n/a CAACTG [5,678,683 / 5,678,688]
2 T-Box n/a GATCCCACCT [5,678,737 / 5,678,746]
3 bHLH n/a CAACTG [5,678,786 / 5,678,791]
4 T-Box n/a TTTGGCACCT [5,678,873 / 5,678,882]
5 bHLH n/a CACCTG [5,678,929 / 5,678,934]
6 bHLH n/a CATATG [5,678,951 / 5,678,956]
7 bHLH n/a CATTTG [5,679,045 / 5,679,050]
8 bHLH n/a CAAATG [5,679,075 / 5,679,080]

Sequence

Aniseed Coordinates: [5,678,246 / 5,680,582] on scaffold KhC3

JGI version of this sequence. note that E5 is not present in JGI assembly sequence.

Show sequence

Length: 2,337


CATTGATTTACAAAAATATTTATACAGTTTTTGATTTTGAAAACAATAGAGTAGGGTGGG
GGAAAATGGGATACCCTTTCATTCTATTTCCTTGTTCCATTTAGTAGTAAACAAAGACCT
TTTCAGAGAATTATAAAACCGTATTCTCACGACTCCCACAGCCCTTTGTTAATTATTTAA
AACATGATTAGAATATTTAAATATAATGTCCCAAAGATGCCCCATCTTCCGCCACAGTAC
TATACTTGAAAAATATATTGTTCTGCCCCTGAAATAGGAACTTTAGGGGGAGATTTTTCT
TACGCACATGATAAATTAATATGTTGTTACCGATAAATTGTAGATACTTAAAATGAAAAG
GTCGCAATTGTATTTACCATTATAAAACAGAAGATCGGTGTGTTTTGCTGGACAAATATT
GAGAAAATCTGTGGCGACAACTGTGGTCTGATTTACAGGCGAGTTGGACGGAGTTGACAG
GTCGCGAAAGCGATCCCACCTTCGTGTCTGGGTTTCGAGGTGCCGCCCGTCGTGCAGTAG
CAACTGTGCGGTCAAGTTGAGAGCAAGAAGACACTACAGCGCGCTTTGAAGCGTCCAAGC
CGCCCGCTGAGCAGGGCGGATAGCTCGTTTGGCACCTCGTCTGGCATCGTCCGCACTGTC
AACCTTCTTCGTACAAACGTCCTCACCTGCCGCGCAGGATTGCTTCATATGGCAGACCGA
GTTGAGTGGGAAATCATATTCTGGTTGCTTCGCTTATAGAGCTAGCTCACTAGAGACTAG
AGTGTTGTGAATGATGAATCATTTGAATTAAGCATTTTGTTTAGTTGATCAAATGAGTTT
CAGTTTGATGTTCAGGACTGCTAAGTAATGCAGTGAAAGGAATTCTAAAGTGATTATATT
TAGAAATGGGCTATCAGTGCTTGATTACTGTTGCAGGGTTATTTAAAAATGCAGTCGAAC
AGTCTAAGAAAGCTTAGCTATATTTGAAGGATTATGTATACTTATTTCATTAGAGCAATA
TTTTTTTTTTTATTTTAGACTTTTGGTACATATTCAAAATATCAAAATTCTCACTGTGAA
ATATATTACTGTGATTACATCATGACCTCCGTCGAGCCCATGCTTTATCAAGGCAAGCAC
GCCGTTCAGAAAAATGAAGGTATATATGCAGTCCTATTTATATTATAATTCATCGCGGCA
ATTGTTTCTCTTATAAAAATCAAACGCGATCATTTTAAATGTTGTAAACAGAGCAGATGC
CTTTGTAAATATGCATCATCTTGTACCGAGAATCCAGCAGAATTTTCCATGAGACTTTCG
TTCACGTAAAAGTTAAATTATTTTCGGAGGTTATTTGCGCACGGCGCGGTGTTGGAACTT
TTCGCTAATCCGACTGTTTGTTTCCGCCTAAATTAATCACAAGTAACAGTTGCGATAAAA
CAAGGAAACGACTGGATCTCCCGCTGTTATAGGATGCCACCTCGCACGTCAAACCCCACA
CATACCGTAACTTTTACCTAAATAATGGAAATGCAATTATTTAATTACCTGTGGAAGAAT
CCGGACTAAGCCGAGATTGCCTAATATAGTTAGACAAGGTCCGGTCACTCGGGCTAAACA
TTCAAACAGGTGGTGCCTAAAATAGATGCGAGCTGGTACCAAGTGTTTTGCTCGCACCGT
TCCTCCCATGGGTGACTGGCTGGCTTTAAGGATGGAACGCTACCGATATAAGTTTGACGT
AATCTCGGTCTGGATGAAAGCGTTGACAGCACTACCTGTTTGCACACTCGGCACAACTGC
TGCTTATGGAAGTGAACTGCGGTTTCCCGATATGGAAACCGTATGGCTCAATAACAAATT
ATTTACGGCCCTCAGGACAGCCCGCCATGCAGTCTGCACCATATTTTTAATCCTGGCTTT
TGCCAAGACCAAATATTACAAAGTTAAATCTTCTTTAGGCGAATCTACCCGTCCTTGCAC
TTTGAGTGGAGATGACAGTTTTTACTGCAGCGGCGAATCAACAAATTCGACGTCATCTCC
CACGTCATCCATTACGTCATCGCGTTCATGTGGACCTGACAGCGACGAAGGTTTTCCGAG
ACAGGATGACCTGGATTTGCGTGACAAAGCCAGCAAAAACTTGCAACATAGCGTTGAGCT
TTTTTGCCCTATTAAGAGCAAGTCAGTTGATCATGATAACGATTTAATGCCTATGGATCT
CTCGTGCAAAAAGAGAACTTTCCCAAAACAAAATTGCAAAACTGCTAGCATGCCTAAAAC
GAGCCCAACCATAAAATCAGAACCGATTGATGACTATCCAGCTTCACTTACACGCAA

Reference(s)

Erives et al. (1998). Lineage-specific regulation of the Ciona snail gene in the embryonic mesoderm and neuroectoderm. Dev. Biol. 194(2):213-25

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