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CIS-REGULATION

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  1. Region 'REG00000017'

Cis-regulatory Region

Name

Otx -1417/161

Short name

n/a

Region ID

REG00000017

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Vincent Bertrand (2007-01-19)

Annotator

Guillaume Luxardi (2007-01-19)

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 -1541/161 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000011: pOtx -1417/161::NLSLacZ

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

4,313,9964,315,573

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

Sequence

Aniseed Coordinates: [4,313,996 / 4,315,573] on scaffold KhC4

BASE COUNT 452A 343C 307G 476T 4OTHERS

Show sequence

Length: 1,578

GACAATAACGAAGCTCCGCAATGTTTTGGTAAGATAATAACTTGGAAAAACACAGAACGT
ACAAGCGAAAATGCGTGTCGTACATGAGTTACGACAGCTGTGGTTGTTTATCGTTAATAT
CTATTTTAAAGTAAGCACCTTAAAATTTAGCAAACGAAATCGTGTTCGTTGTGCATAACA
GTCTATTTCCTTCGTCTTCTGTGTTTGTTCCGTCCATTCTAATTGTGTGTAACTATGTCT
GTGCTTGCTGGTCTGTGTTTGAGTGGCCACAGTCGAATTAATGGCCATCGCCGCTGCCAC
AGTGCAAATACAGAAGGTAGGGGAACATACGGGCACTTTGTACGCAGTCTGGATACAACA
TAAGCCGTAACTGAGACCTCAGATCTGCTATCACTACAATTTGCCCCGTTTTACTTTAAA
ATTTACCCAACTCAGCAATTGTACATGACTATATTATACCACAGGGGTTTCGTTACAACT
TAAAAATATGAAAACCTTATTTTCAAATGCCCTCGGTTTGGGATAAGTTTGGGCTTCGGC
GTACCGCACGTAACTTGATACGCTTTGGTCAGTTAAAATCGAGCGGACCGGTTGCGCTAA
GATGGACTGACGAGTGGTTGGTAGAATTTCCGGGGTACGGAAGGCGCGCAATTTATACCA
GGCGAGAAATCTTGCACCGGCAGATGACGTCGCTCTGACGTCATTCCGCCCTTAAGAATC
TTCCTAATTAAATTCTAATTGCAGATTGAAAGACGGTCGTATTTTTAGCATGACAACAAC
TCTTAGCGGGTGGTAGCACCTGCCGGGTCAGGCCAGTCCTTGTCTCATGCTCCAGATTCA
AGCTCGGCAGACCATTTGCCGCACTTCATTTCGGCTTCTCGCTCCGACCCCCCAACGTCC
GCTATTCACACTTGGAGCGCAGCTTTGTTTCTTTCTTTATCTTATCGGAGGCGCCAAGCG
ATTGCTTCCGAATTTCCAGGCCTTCCCCGCTTGCAAGGGCGGCCTCTCACTCCTTCCCTC
GCTCCCGCCTTTCTCTTTTTTCCTCGCTCGATTTTAATTAATCGGGTATTTAAATTCGTC
ACCACTTCCATTTGAATCATTAAGTAGCTTGTGGTCCTCTTAGTCACAAGGCGGGATCTC
CCCAATCTAGATACTTGGTCCAAGCATAGCAAAAAAGCCTAACTCATATAATAATACATT
AGCAGAATAGCCATCCTTGAAAGTTATCCCAGTTCGAAAAGTCAGTTTAAATAGTAAATC
AAATCAGTCTTTGTAATCACGAATAATCTTAGTCGTATTCGAGCATACATGTATGGAACA
TTGAAATGAAATCAAAGAAAATCAGGCATTCACATTACATTACATGCTATTTTCAGTTCG
TATTTTAACTTTTATAATTCTTTCTACAGATATTAGGCTTCAACCTGATAATTTTGAAAA
ATAGAGGTTTATTAAATTTGTAAAATAAGTTGATTGATTACAATCTACAAGCAAGAAGTT
TGAAAAGTAAAAAATCAAGTTGAAAAACGAAGACATTTTGAACGAAAAAACAAATTCATT
TCAAGTACCACGGGTGAG

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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