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CIS-REGULATION

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  1. Region 'REG00000242'

Cis-regulatory Region

Name

Otx -2165/161

Short name

n/a

Region ID

REG00000242

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 -3541/161 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00000234: pOtx -2165/161::NLS-LacZ

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

4,313,9964,316,321

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(GATA) n/a TTATCT [4,314,691 / 4,314,696]
2 Ets n/a CGGAAG [4,314,701 / 4,314,706]
3 Ets n/a AGGAAA [4,314,716 / 4,314,721]
4 ZnF_(GATA) n/a ATATCT [4,314,729 / 4,314,734]
5 ZnF_(GATA) n/a AGATAG [4,314,736 / 4,314,741]

Sequence

Aniseed Coordinates: [4,313,996 / 4,316,321] on scaffold KhC4

JGI v1.0 version

Show sequence

Length: 2,326


CTCGAGCGATATATATGGTGGCGTATAGATAAGCGAAGGCCGCCATTAATATAGATATAT
ACGAAGTTTTTAATATTTTACTCCGTTTTAGGGTATGTGCACAATGGTCTTATCCATTTT
TTCTGTTTGGTTTACGGTTTTCGTTACCTGCATAGATTAGCATTTCCTCTTGTTTAAGCA
TAGTACTGTGGGGTATAGGAGGAATACCGTTTGCAGATGATTTCCCATATTTCCCAACAG
TTAACAACGCTATATTAAAGTATTGAGTACACGGTTTTATAAATAGGTAAATGTTTCTTT
TTAACTGCCAATTAGGACAAGAGCAGGACCATCTTACCCCAGCGTACTATGTATATCTTG
CTGGTAATTTTATCTCCGTAAACCTACAGTCCGTTGCAGGGCGTCTTGTTTCGTACATCT
CACAGCAAGACACTGTTAATCACCACCTTACTACAGTCCCTACCTGTTTAACAAAATACT
AACGTGGTGAAGCTAATCGTTGGATAATCACCAATTACTCGCAGCCCAGCACGTCCAATA
CAACACGCGGCAGGTCGTCTTTTACCGAACATGTTTTCGGCGTGTTATCATAGCGAAGCA
CGCTGCGTTTCCTTCACCTTACGACGTGTGATAGTGCGTGATAACTCGTATCCTTTCGCA
CTGCGTTCCTATCCGTACTTTGGATCTGAAGCTCGTTATCTCTAACGGAAGTTTTCGAAA
AGGAAATTGTTCAATATCTAAGATAGGAGACAATAACGAAGCTCCGCAATGTTTTGGTAA
GATAATAACTTGGAAAAACACAGAACGTACAAGCGAAAATGCGTGTCGTACATGAGTTAC
GACAGCTGTGGTTGTTTATCGTTAATATCTATTTTAAAGTAAGCACCTTAAAATTTAGCA
AACGAAATCGTGTTCGTTGTGCATAACAGTCTATTTCCTTCGTCTTCTGTGTTTGTTCCG
TCCATTCTAATTGTGTGTAACTATGTCTGTGCTTGCTGGTCTGTGTTTGAGTGGCCACAG
TCGAATTAATGGCCATCGCCGCTGCCACAGTGCAAATACAGAAGGTAGGGGAACATACGG
GCACTTTGTACGCAGTCTGGATACAACATAAGCCGTAACTGAGACCTCAGATCTGCTATC
ACTACAATTTGCCCCGTTTTACTTTAAAATTTACCCAACTCAGCAATTGTACATGACTAT
ATTATACCACAGGGGTTTCGTTACAACTTAAAAATATGAAAACCTTATTTTCAAATGCCC
TCGGTTTGGGATAAGTTTGGGCTTCGGCGTACCGCACGTAACTTGATACGCTTTGGTCAG
TTAAAATCGAGCGGACCGGTTGCGCTAAGATGGACTGACGAGTGGTTGGTAGAATTTCCG
GGGTACGGAAGGCGCGCAATTTATACCAGGCGAGAAATCTTGCACCGGCAGATGACGTCG
CTCTGACGTCATTCCGCCCTTAAGAATCTTCCTAATTAAATTCTAATTGCAGATTGAAAG
ACGGTCGTATTTTTAGCATGACAACAACTCTTAGCGGGTGGTAGCACCTGCCGGGTCAGG
CCAGTCCTTGTCTCATGCTCCAGATTCAAGCTCGGCAGACCATTTGCCGCACTTCATTTC
GGCTTCTCGCTCCGACCCCCCAACGTCCGCTATTCACACTTGGAGCGCAGCTTTGTTTCT
TTCTTTATCTTATCGGAGGCGCCAAGCGATTGCTTCCGAATTTCCAGGCCTTCCCCGCTT
GCAAGGGCGGCCTCTCACTCCTTCCCTCGCTCCCGCCTTTCTCTTTTTTCCTCGCTCGAT
TTTAATTAATCGGGTATTTAAATTCGTCACCACTTCCATTTGAATCATTAAGTAGCTTGT
GGTCCTCTTAGTCACAAGGCGGGATCTCCCCAATCTAGATACTTGGTCCAAGCATAGCAA
AAAAGCCTAACTCATATAATAATACATTAGCAGAATAGCCATCCTTGAAAGTTATCCCAG
TTCGAAAAGTCAGTTTAAATAGTAAATCAAATCAGTCTTTGTAATCACGAATAATCTTAG
TCGTATTCGAGCATACATGTATGGAACATTGAAATGAAATCAAAGAAAATCAGGCATTCA
CATTACATTACATGCTATTTTCAGTTCGTATTTTAACTTTTATAATTCTTTCTACAGATA
TTAGGCTTCAACCTGATAATTTTGAAAAATAGAGGTTTATTAAATTTGTAAAATAAGTTG
ATTGATTACAATCTACAAGCAAGAAGTTTGAAAAGTAAAAAATCAAGTTGAAAAACGAAG
ACATTTTGAACGAAAAAACAAATTCATTTCAAGTACCACGGGTGAG

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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