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CIS-REGULATION

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  1. Region 'REG00000243'

Cis-regulatory Region

Name

Otx -1723/161

Short name

n/a

Region ID

REG00000243

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Vincent Bertrand (2007-11-14)

Annotator

Patrick Lemaire (2007-11-14)

Curator

Delphine Dauga (2010-03-01)

View position in WashU

Description

This regulatory region is segmented in Four parts:
Region -1541/-1417 mainly drives expression during cleavage stages in a- and b-line neural precursors as a result of induction by FGF9/16/20
Region -1417/-1133 drives expression in A-line cells from the 64-cell stage onwards
Region -706/-271 drives cleavage stage expression in b- and B-line cells
the first intron drives later expression in the palps and anterior ventral epidermis.


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

Hierarchy of Regulatory Regions

Modification of Otx -2165/161 by deletion

Regulated gene(s)

KH2012:KH.C4.84 (CRX; OTX1; OTX2)

Construct(s) made to test this region

CONS00000235: pOtx -1723/161::NLS-LacZ

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

4,313,9964,315,878

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(GATA) n/a TATCTC [-1,470 / -1,465]
2 Ets n/a GGAAGT [-1,460 / -1,455]
3 Ets n/a GGAAAT [-1,445 / -1,440]
4 ZnF_(GATA) n/a TATCTA [-1,432 / -1,427]
5 ZnF_(GATA) n/a GATAGG [-1,425 / -1,420]

Sequence

Aniseed Coordinates: [4,313,996 / 4,315,878] on scaffold KhC4

JGI v1.0 version

Show sequence

Length: 1,883


CACCTTACTACAGTCCCTACCTGTTTAACAAAATACTAACGTGGTGAAGCTAATCGTTGG
ATAATCACCAATTACTCGCAGCCCAGCACGTCCAATACAACACGCGGCAGGTCGTCTTTT
ACCGAACATGTTTTCGGCGTGTTATCATAGCGAAGCACGCTGCGTTTCCTTCACCTTACG
ACGTGTGATAGTGCGTGATAACTCGTATCCTTTCGCACTGCGTTCCTATCCGTACTTTGG
ATCTGAAGCTCGTTATCTCTAACGGAAGTTTTCGAAAAGGAAATTGTTCAATATCTAAGA
TAGGAGACAATAACGAAGCTCCGCAATGTTTTGGTAAGATAATAACTTGGAAAAACACAG
AACGTACAAGCGAAAATGCGTGTCGTACATGAGTTACGACAGCTGTGGTTGTTTATCGTT
AATATCTATTTTAAAGTAAGCACCTTAAAATTTAGCAAACGAAATCGTGTTCGTTGTGCA
TAACAGTCTATTTCCTTCGTCTTCTGTGTTTGTTCCGTCCATTCTAATTGTGTGTAACTA
TGTCTGTGCTTGCTGGTCTGTGTTTGAGTGGCCACAGTCGAATTAATGGCCATCGCCGCT
GCCACAGTGCAAATACAGAAGGTAGGGGAACATACGGGCACTTTGTACGCAGTCTGGATA
CAACATAAGCCGTAACTGAGACCTCAGATCTGCTATCACTACAATTTGCCCCGTTTTACT
TTAAAATTTACCCAACTCAGCAATTGTACATGACTATATTATACCACAGGGGTTTCGTTA
CAACTTAAAAATATGAAAACCTTATTTTCAAATGCCCTCGGTTTGGGATAAGTTTGGGCT
TCGGCGTACCGCACGTAACTTGATACGCTTTGGTCAGTTAAAATCGAGCGGACCGGTTGC
GCTAAGATGGACTGACGAGTGGTTGGTAGAATTTCCGGGGTACGGAAGGCGCGCAATTTA
TACCAGGCGAGAAATCTTGCACCGGCAGATGACGTCGCTCTGACGTCATTCCGCCCTTAA
GAATCTTCCTAATTAAATTCTAATTGCAGATTGAAAGACGGTCGTATTTTTAGCATGACA
ACAACTCTTAGCGGGTGGTAGCACCTGCCGGGTCAGGCCAGTCCTTGTCTCATGCTCCAG
ATTCAAGCTCGGCAGACCATTTGCCGCACTTCATTTCGGCTTCTCGCTCCGACCCCCCAA
CGTCCGCTATTCACACTTGGAGCGCAGCTTTGTTTCTTTCTTTATCTTATCGGAGGCGCC
AAGCGATTGCTTCCGAATTTCCAGGCCTTCCCCGCTTGCAAGGGCGGCCTCTCACTCCTT
CCCTCGCTCCCGCCTTTCTCTTTTTTCCTCGCTCGATTTTAATTAATCGGGTATTTAAAT
TCGTCACCACTTCCATTTGAATCATTAAGTAGCTTGTGGTCCTCTTAGTCACAAGGCGGG
ATCTCCCCAATCTAGATACTTGGTCCAAGCATAGCAAAAAAGCCTAACTCATATAATAAT
ACATTAGCAGAATAGCCATCCTTGAAAGTTATCCCAGTTCGAAAAGTCAGTTTAAATAGT
AAATCAAATCAGTCTTTGTAATCACGAATAATCTTAGTCGTATTCGAGCATACATGTATG
GAACATTGAAATGAAATCAAAGAAAATCAGGCATTCACATTACATTACATGCTATTTTCA
GTTCGTATTTTAACTTTTATAATTCTTTCTACAGATATTAGGCTTCAACCTGATAATTTT
GAAAAATAGAGGTTTATTAAATTTGTAAAATAAGTTGATTGATTACAATCTACAAGCAAG
AAGTTTGAAAAGTAAAAAATCAAGTTGAAAAACGAAGACATTTTGAACGAAAAAACAAAT
TCATTTCAAGTACCACGGGTGAG

Reference(s)

Bertrand et al. (2003). Neural tissue in ascidian embryos is induced by FGF9/16/20, acting via a combination of maternal GATA and Ets transcription factors. Cell 115(5):615-27

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