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CIS-REGULATION

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  1. Region 'REG00000245'

Cis-regulatory Region

Name

Otx -271/1333

Short name

n/a

Region ID

REG00000245

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Vincent Bertrand (2007-11-15)

Annotator

Patrick Lemaire (2007-11-15)

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

CONS00000238: pOtx -271/1333::NLS-LacZ

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

4,312,8274,314,427

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

Sequence

Aniseed Coordinates: [4,312,827 / 4,314,427] on scaffold KhC4

JGI v1.0 version of the sequence

Show sequence

Length: 1,601

CTAGATACTTGGTCCAAGCATAGCAAAAAAGCCTAACTCATATAATAATACATTAGCAGA
ATAGCCATCCTTGAAAGTTATCCCAGTTCGAAAAGTCAGTTTAAATAGTAAATCAAATCA
GTCTTTGTAATCACGAATAATCTTAGTCGTATTCGAGCATACATGTATGGAACATTGAAA
TGAAATCAAAGAAAATCAGGCATTCACATTACATTACATGCTATTTTCAGTTCGTATTTT
AACTTTTATAATTCTTTCTACAGATATTAGGCTTCAACCTGATAATTTTGAAAAATAGAG
GTTTATTAAATTTGTAAAATAAGTTGATTGATTACAATCTACAAGCAAGAAGTTTGAAAA
GTAAAAAATCAAGTTGAAAAACGAAGACATTTTGAACGAAAAAACAAATTCATTTCAAGT
ACCACGGGTGAGTTCGTAAAAAATACCTAATGAGATATTTTAAAATTTAGCGAAATTGCA
AAAAATTGCACATGTTTTTTAGGCTTGGTATTATCGAATAAACACGCAATACTTCAGCTA
AAACCGCAATCAAAAAAATGTGTGGTTTGTGGTATAGGAAAATATTTATCTGCTCGTTAT
ATTTTTGCATTAAACGCAAGTAACAGATTTAAAATAATTAAAAAATCAAATAACGATATA
GTAGGATGAAATAGATGGGCCATGTTTTTGTAAGTAAACAAAGTTATTTAAACAATCACC
GTATACCCCCATGACTCTGAAAGAGCGTTATTAAAAACACAGTTAGGAAATATGGCATGT
TATGTGCTAAACTTATTCATCTTAACCCGTAATAATATTAAGTTGTTACTTTTACGAACA
TTTTGGTGTCTGTCGGTTTTCGTTCTGTTGTGATCGTTGCGCTGATAAGTGGCCAATGTA
AACATAAACAATCTCGTCGGTGCAGAATGTTATGGGAACTGCAGGTCTGGAGGTAGAAAT
ACAAACGCCGATAAAAACAAATACTGCTCTGTTTAGAGACCGAATAAATGTTTGTATATT
GGAATATAGTTTGTTATTGCTTGACAGTCTGCACGCGAGTACGAAAGCGTGTGAAAAATC
GTAAATGGAAAGCGATTTAGTTTGTACCGCTGCTCCGAAAATTAAACTACGTTAAAATGA
ACCCTTTCAAGAGTTATCGGTAATGAACAATAACTTACAGAATTAAATTATTGATTGTGA
AACTAAAACTTGGGATAATCGGCCACTAATCCGACGACGTTGGTCAGTTTCATTGTTTTA
ACGCCCTGTACTTTGGCGAGCGTTTAAAATTCGGTCATTCAAATGACCAAGGGCACGTGC
ACGCGTTGCTGGACTATTACGTCCGCTTGGGCAGCTATTGTTTGAATATTTGCTTTAGAG
CCCTGCACAGCCTGCAGTGTGCTGTTGTACCGGTTCCCTGCATGTATGGTGGCCAACTTC
AATAGCCGTTAACACAAAAGACCAAAAGGCACCTGGTGTAGTCATTAAGTTCACCGCTAT
TCGTGTGACCTCGTTGTACGATTCACCTCAGCATTCCGTAACGTTAGTTTTGTATTGCAG
GTTCAATTCCTAACATGTCGTATTTGAAATCTCCCCACTAC

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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