Aniseed - Cis-regulation

Cis-regulatory Region

Name

Ci-SoxB1 -2021/80

Short name

n/a

Region ID

REG00000352

Status

Curated

Origin

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

Type of Activity

no_output

Author

Émilie Carmona (2008-01-01)

Annotator

Émilie Carmona (2010-06-08)

Curator

Delphine Dauga (2010-06-08)

View position in WashU

Description

This region is the root of the SoxB1 analysis (meaning includes all regions tested), but it was not itself experimentally tested.

Coordinates are based on KH transcript model.

Hierarchy of Regulatory Regions

Ci-SoxB1 -2021/80 REG00000352 [ no_output ]
- Ci-SoxB1 -505/-215 REG00000353 [ regulatory_region (extended_promoter) ]
- Ci-SoxB1 -1911/-1541 REG00000354 [ inactive_region ]

Regulated gene(s)

KH2012:KH.C1.99 (SOX14; SOX2; SOX21)

Construct(s) made to test this region

n/a

Overview of functional TF binding sites in this region

1,489,4771,491,577

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

Sequence

Aniseed Coordinates: [1,489,477 / 1,491,577] on scaffold KhC1

Sequence from JGI V1.0

Show sequence

Length: 2,101

AAATCCAGTTTAATGACGTGTGAGACTTTAGGCGAATGTTCGCAAGAATTGAATTAAATA
TCTTTACTTGATTCCAAACGCTGTAAAGTAGAAGTTTCAGTTAAAAATCAATTTAAAAAA
CTTCAAACACAAATCACAGTTGACTTGTAACATATTCTGGCTATCGGCTGACAATTTTTA
ATGGTCCCTATTTTTCTATTTCAGACTTTTTACTCCAGAAATATTCTCGCGTTAATTCTA
TTGAAACTACGGTCTACAATTTACGATTGTTTTTAACAATTGTAATTCAATTGTTCTGCT
TGTCCATAGAAGAGGTCTTATAATCTATGGACTCATAACTTTCTTGGAGACAATGCCTGA
ATAGAAGCTCACAATGCCACTATGAAGTCACAAAAGGCAGAATGAATGAAGTAGGCATCT
CACAGGCTGCCTTTATTGCGCTACAAACGACCTTTCTCTCGCTACGACTTATCTTCGCGG
AGGCGAACGTCGCCTTTTTCTTTTCGTTGGGATCCAGCGTTCCCTAAAGCAACCATCTAA
ACGACTTCGAATCAGCGAAAAACGTGGTCGGTTCATGATAAGACAGAATTCGATTTTATA
CGAATCGAAAAATATGAAAACCCGCAAAAGTTATATTTACAAAAAAGAAACGAATAACAA
AACTCATAACCCAATACTTAAACCTTTAGCATATATACCTAAAACTCAAAACACCAGCTT
AGAAAGAAAACTGTTTTAAGCGTTAACATGAAACCGCACAATTACAATTACACAACTCTA
TATTTCAATAACATCCCCATTAACGTATAACACCCATACAAAAATATCAACAAAGTGTAA
AACTAACAACCTTGTGGTCGTTCCAATAATTGTAATGTTTAATTTTGTCAAAAAAAATCA
AGCATACATGGCGTATCAAAAAGGTATTCCTCCTCGGAATGCGTAGTATGAACACAAACA
GTGTATTTTACTTCCACACCTTTCGGAACTATCGTCATGAATGCACATTGTCAGTAACAA
AGGCAGCGCCCATTCAGTGCCGACTTTACAAGCACTTTTGCCAATTCATAAGCCACTCAA
TGAACGGATCAGAATAGACCGTTTTGTTCTTTTACGATGAATGGTTAATTCTACCGGCAT
GAATGCCCAGTAAAGCACACGCGACTTATGCGCAGAACATCAGTAATTGTTATTGGGCTA
CTACACTACTATAGTGGTCAACACGTGTTGTGTACAGACAACAGTCATTATACTAACAAT
ACAAAACTTCTAAATTAAACAAATTGAACACAAACCAAACGATTTCCTGATGTTTTTCAA
TACAGTTTATTCATAGCGTGTTTTACCAACTGTCATTTTGCTGTTAATTCCTTGTTTTTA
AACTTTTAATAATTTCATCTTCGTTACTCTATTCGACAAGATAGATAAAGACTTTGTTTC
TTTATGTATCTTGCCTTAACACACTTAAAACTGACAACAGAACTAAATAGCGAGCTCTAT
ACTCAAAACTAGGAATACTACATTACAAATATACGATGTCTATATGGTTACAAACTCTGG
CTTTACAGCAAAACACCAGCAATACAAATCCAGTGTAAAACCAACCAAAGCAACGACAGC
ATGTAGATATCTAAGTGTTCAAGTGTCCGCGAACACTCGACATCCTAGAAAACACGCGCA
GCCAGTTATTAGGTTTCAGCGCGGACAAACCGACAAGTACCACCGTTTTTTTCGTCGCGT
TTCACTCAATTCAGATGCTTACTTTTGCCTACGCTCTGCTCGGTCGGTTTTAGCATGACG
ACGCGCGGCCCCACGACACCCCAGCCTACTTACGACGACTTCTGCCATGCCTGCTTCGGG
CCAAGTTGTGTTTAACGGTTCATTTGCGACGGGAAATCGTGCAACTCAAGACCATCAATG
AACGAACACAACGTATTCTATATTTGTCGTTAAGTTACACCGACTGTATACCATAGACGC
CTACCACGGAGCGTATCCCGCATGTACAACCCCTACAACAAAATGCAAACATCAATTTCG
ACCCCACTATTGAGAAAATTGTTGTGTAATAAAACCAGCGCAAAATATTTCGTAATTTGC
G

Reference(s)

Khoueiry et al. (2010). A cis-regulatory signature in ascidians and flies, independent of transcription factor binding sites. Curr. Biol. 20(9):792-802