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CIS-REGULATION

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  1. Region 'REG00000008'

Cis-regulatory Region

Name

Otx -3541/161

Short name

n/a

Region ID

REG00000008

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Vincent Bertrand (2007-01-18)

Annotator

Clara Degos (2010-07-23)

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 -3541/1333 by deletion

Regulated gene(s)

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

Construct(s) made to test this region

CONS00001054: test1456

CONS00000002: pOtx -3541/161::NLSLacZ

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

4,313,9964,317,697

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 ZnF_(GATA) n/a TTATCT [4,316,067 / 4,316,072]
2 Ets n/a CGGAAG [4,316,077 / 4,316,082]
3 Ets n/a AGGAAA [4,316,092 / 4,316,097]
4 ZnF_(GATA) n/a ATATCT [4,316,105 / 4,316,110]
5 ZnF_(GATA) n/a AGATAG [4,316,112 / 4,316,117]

Sequence

Aniseed Coordinates: [4,313,996 / 4,317,697] on scaffold KhC4

JGI v1.0 version

Show sequence

Length: 3,702


GGCTGTTGGATGGTTGTAAGGGCGTACATAGCTTCCTTATCTTCTGCTGGGACAGGTGTT
ACATGTCTCCCCTTATGTTTGAATTGTCCTAAGCTAAGGGAGACGATCTTGAAGCATTGC
GTGCTTGAGGTCTTGATGTTAAAAAATCCAAGGGCCATTTGCGTCAAAAGATTCTTTTCA
CGCATCACTTGCAACAGTAAATTAAGAAACACACCGAAATTCCGGTTGCCATTTTCGCCC
CGTGCTTCGTGGTCAAACTTCAGACACTGGCTTCTCCATAATTGTTTGAATACTTGAAAT
AAACCTCTAATTGCAGCGCACAAGTCCCACATATTCGCAATTACCCGTACTTAGCTACAC
GCGTGTAATTATTACCGCCGTTCTGTTTACAGCAGCCACACTTAATTAACATGGCAAAGA
GCAGTTCTTTGATATAAATCTGCAGCAAAGTTAGTAAGTTATTTACCGGTACATATCTTG
TGGCATGCGGCATTCGCTTACTACAACTGCCTAGCGCTACTTTCGGCAGAGAACAAAGTC
GTTTTTTTGATAAACCATCAATAAATATGACGCTGATACGACTACAGATTGGGCCGAGTC
AGGCTTTCCCGTGTAAGCCGCGCTTAAGCCGTATAAAGCACATCGTTATCTGCTGTGTGG
TAATCACTAAGGCATCTTTAATTCGCTCTGGAATTTACGATTTGTTTGTTAACATTACGT
TGTAGTTAATGTATCTTTATATAGGGTGTTATAATCCAAGCGTTATATCTCATCTTGCAT
GTATCGAAAATATAAGATTGCATCTAAAACAAAAGTTACATAATCTTTTACAAACTGGGT
CATTTTGGTTCGCAGTATGCATTTGCTAATATTAGCTTTCCCAACGCTCTAGTGTGAGTG
TATATGAACACATGCTGCTTCTATTCCGATTTTCTGCGTTTCGGAAACAACGCATGAAAT
TAATGTTTACTAAGTCAACAGAAACAGCTAAAAATCTGCCCGACTGGAAATGCAATACGA
CTGTATTTATAGTTAAATGCGGCCTCTCTGCAAGGTTAAAGCAAGTTGGGTAAAAGTTAT
GTAACACAGATACCACAAAACATATTAATCACAAAACAAATTTCAATAATAAGAAACAAA
AATGTTGATAATAGTTTTGCTGATCAACACTATATGAGTTTTAAAGATTTTGTTCCATTT
AAAACCCACACTCATAACATTTCATAATATCTAGATTAAAAACTCATTATTTTAAGGTAT
TTCTCCCGTTTTAAAACAAATTCGAAAACCGCATGTATGCCGTCGGCCATTTTGTTTCGA
TCAATGTCAACGGTAAAGCGAGCAACGGTATCGGAATGTCTAACGCGTCTAACTGACTCG
AGCGATATATATGGTGGCGTATAGATAAGCGAAGGCCGCCATTAATATAGATATATACGA
AGTTTTTAATATTTTACTCCGTTTTAGGGTATGTGCACAATGGTCTTATCCATTTTTTCT
GTTTGGTTTACGGTTTTCGTTACCTGCATAGATTAGCATTTCCTCTTGTTTAAGCATAGT
ACTGTGGGGTATAGGAGGAATACCGTTTGCAGATGATTTCCCATATTTCCCAACAGTTAA
CAACGCTATATTAAAGTATTGAGTACACGGTTTTATAAATAGGTAAATGTTTCTTTTTAA
CTGCCAATTAGGACAAGAGCAGGACCATCTTACCCCAGCGTACTATGTATATCTTGCTGG
TAATTTTATCTCCGTAAACCTACAGTCCGTTGCAGGGCGTCTTGTTTCGTACATCTCACA
GCAAGACACTGTTAATCACCACCTTACTACAGTCCCTACCTGTTTAACAAAATACTAACG
TGGTGAAGCTAATCGTTGGATAATCACCAATTACTCGCAGCCCAGCACGTCCAATACAAC
ACGCGGCAGGTCGTCTTTTACCGAACATGTTTTCGGCGTGTTATCATAGCGAAGCACGCT
GCGTTTCCTTCACCTTACGACGTGTGATAGTGCGTGATAACTCGTATCCTTTCGCACTGC
GTTCCTATCCGTACTTTGGATCTGAAGCTCGTTATCTCTAACGGAAGTTTTCGAAAAGGA
AATTGTTCAATATCTAAGATAGGAGACAATAACGAAGCTCCGCAATGTTTTGGTAAGATA
ATAACTTGGAAAAACACAGAACGTACAAGCGAAAATGCGTGTCGTACATGAGTTACGACA
GCTGTGGTTGTTTATCGTTAATATCTATTTTAAAGTAAGCACCTTAAAATTTAGCAAACG
AAATCGTGTTCGTTGTGCATAACAGTCTATTTCCTTCGTCTTCTGTGTTTGTTCCGTCCA
TTCTAATTGTGTGTAACTATGTCTGTGCTTGCTGGTCTGTGTTTGAGTGGCCACAGTCGA
ATTAATGGCCATCGCCGCTGCCACAGTGCAAATACAGAAGGTAGGGGAACATACGGGCAC
TTTGTACGCAGTCTGGATACAACATAAGCCGTAACTGAGACCTCAGATCTGCTATCACTA
CAATTTGCCCCGTTTTACTTTAAAATTTACCCAACTCAGCAATTGTACATGACTATATTA
TACCACAGGGGTTTCGTTACAACTTAAAAATATGAAAACCTTATTTTCAAATGCCCTCGG
TTTGGGATAAGTTTGGGCTTCGGCGTACCGCACGTAACTTGATACGCTTTGGTCAGTTAA
AATCGAGCGGACCGGTTGCGCTAAGATGGACTGACGAGTGGTTGGTAGAATTTCCGGGGT
ACGGAAGGCGCGCAATTTATACCAGGCGAGAAATCTTGCACCGGCAGATGACGTCGCTCT
GACGTCATTCCGCCCTTAAGAATCTTCCTAATTAAATTCTAATTGCAGATTGAAAGACGG
TCGTATTTTTAGCATGACAACAACTCTTAGCGGGTGGTAGCACCTGCCGGGTCAGGCCAG
TCCTTGTCTCATGCTCCAGATTCAAGCTCGGCAGACCATTTGCCGCACTTCATTTCGGCT
TCTCGCTCCGACCCCCCAACGTCCGCTATTCACACTTGGAGCGCAGCTTTGTTTCTTTCT
TTATCTTATCGGAGGCGCCAAGCGATTGCTTCCGAATTTCCAGGCCTTCCCCGCTTGCAA
GGGCGGCCTCTCACTCCTTCCCTCGCTCCCGCCTTTCTCTTTTTTCCTCGCTCGATTTTA
ATTAATCGGGTATTTAAATTCGTCACCACTTCCATTTGAATCATTAAGTAGCTTGTGGTC
CTCTTAGTCACAAGGCGGGATCTCCCCAATCTAGATACTTGGTCCAAGCATAGCAAAAAA
GCCTAACTCATATAATAATACATTAGCAGAATAGCCATCCTTGAAAGTTATCCCAGTTCG
AAAAGTCAGTTTAAATAGTAAATCAAATCAGTCTTTGTAATCACGAATAATCTTAGTCGT
ATTCGAGCATACATGTATGGAACATTGAAATGAAATCAAAGAAAATCAGGCATTCACATT
ACATTACATGCTATTTTCAGTTCGTATTTTAACTTTTATAATTCTTTCTACAGATATTAG
GCTTCAACCTGATAATTTTGAAAAATAGAGGTTTATTAAATTTGTAAAATAAGTTGATTG
ATTACAATCTACAAGCAAGAAGTTTGAAAAGTAAAAAATCAAGTTGAAAAACGAAGACAT
TTTGAACGAAAAAACAAATTCATTTCAAGTACCACGGGTGAG

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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