Aniseed - Cis-regulation

Cis-regulatory Region

Name

Cirobu.REG.KH2013:KH.C4.1879190-1882173

Short name

Ci-TgfNA(-2940/+44)

Region ID

REG00001021

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

n/a ()

Annotator

Shigeki Fujiwara (2015-08-29)

Curator

Delphine Dauga (2018-04-17)

View position in WashU

Description

The DNA fragment contains 2940-bp 5' flanking region, 5' UTR and 38-bp coding region.

Hierarchy of Regulatory Regions

Cirobu.REG.KH2013:KH.C4.1879190-1882173 REG00001021 [ regulatory_region (extended_promoter) ]
- Cirobu.REG.KH2013:KH.C4.1881331-1882173 REG00001022 [ regulatory_region (extended_promoter) ]
  - Cirobu.REG.KH2013:KH.C4.1881531-1882173 REG00001023 [ regulatory_region (extended_promoter) ]
    - Cirobu.REG.KH2013:KH.C4.1881731-1882173 REG00001024 [ regulatory_region (extended_promoter) ]
      - Cirobu.REG.KH2013:KH.C4.1881926-1882173 REG00001025 [ regulatory_region (extended_promoter) ]
        
        Cirobu.REG.KH2013:KH.C4.1882064-1882173 REG00001026 [ inactive_region ]

Regulated gene(s)

KH2012:KH.C4.547 (BMP2; BMP4; GDF5)

Construct(s) made to test this region

CONS00000990: pCirobu.REG.KH2013:KH.C4.1879190-1882173>NLSLacZ

Show in situ data

Overview of functional TF binding sites in this region

1,879,1901,882,173

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

Sequence

Aniseed Coordinates: [1,879,190 / 1,882,173] on scaffold KhC4

The regulatory region was obtained from Kyoto individual, but a part of the above sequence derives from KH assembly.

Show sequence

Length: 2,984

ACATCCGGCTCGTTTATAGCACAAGAGCTATTCCTAAATGAAGTTATATAAATTAATCTA
TTTTTACACTCACTTCAATGCTGGTTCGATTGTATATAAACTTTAAGCGTGTACTTGATT
ACTGAAGTGTTGTCGCTGATTGGCAGTGACACTGGTTTAACGTGCCTCACGCTCTCTATT
CCAGAGTGGTCACTCGAAGCACTAAACGCATTTACACACAATCAAGCAAACAAATTCCAG
CGTACGACGTCGGTGTATGTAATCTGAGTCATAAGGTAAACGATGGCGCACAGTCGCCTA
ACGCCGATGCTATTGATTAGGGAATGAACACAATTAAAAGCACATGTAAGCAGTCTTATG
AGAAAGCAGCTAAGACGATAAGCTACGGTGTACGACATGAGATGTGAATTAGACATTGCG
AATGCAGTTTATTTAATGTAACATTTTTAAGCTTGCAAATGAATTGGTGACGACAGAAGG
TTAAAGTATGTAGTAAAAGCTAGTATAGTTTGGTTTAGTAATGAAGGCTGCTTGAGCAAG
CAAACCAAACCGTACATTCGTCAGTCTTATAGGTAATACTCAAGTTGAAGTATTGGTGTG
TTACCAAATGCTATTATACCGAATCGAGCATTTTTATGGATGATTGTCTATTGTTTGTGC
ATATATACTTTATACGACAAAATAAGCATGAGTTAATCGACATGTGTTGTTTTGCTCAGA
TTCAAGGTGGCCACAGCATACTAGTAATGGTGTATTTATAAATGCTAATCGAGAGTTGGT
ATGGATGATTGTCTATTGTTTGTGCATGTATACTTTATACGACAAAATGGTCATGAATTA
ATCAACATGTGCTGTTTTGCTCCGATTCGCGATAGCCACAGAAAACTAGGGTTGTACTTG
ACGTATCTCCTTTATTTAACAAAGTGTCAAAGACATTATGAGGTGGCTAACTCGTCTATT
TTGAGTGCACCTTCGGGTACTCGCCTGCCCTGGAGAGCGCACCACAAGCACTTCGCTGCC
ACGCGCCTCCCTTCAGAATGCCTAGGGTTTGCTCAGACTAAAATAGCAAAGTGTCCGTGG
TCGTAGTAATCACACCGCAGAGATTTGCAAGTGCCAGATTTTGCTGTTATGTAACAGTTT
CCTAGTTTTTTTCTTTTGTTTAAGTCTATATTCCTTAGCTTTTGTTCTTGCATATGGTTA
ACAGGCGTTGGGCCTTCGCTTTTGTTATTTAAGCGTATTTAGAAATGTTTCTTAGGTTAA
TTCTTTATGCGTTCGTCACAGTGAAATAGGGGAAGATGGGACATTTTCATCATGTTTTCT
CGTCCCATTTGGTAGTAAACAGATAACATCTAAAGAGTTATAAAACCGTAGTCTCACGAC
TCCCATAGACCGTTGTTAATTGTTTAAAACAAATTCAGGTTATTTGGATATTATGTACTA
AAGTATCCCGGCCTACCCAAACCTACTATATTGTTATTTTTCCAAGATATTCGCAGGAAT
GTCTCTGTTAGAAAACTGGCAATTTGGGGAGTAAGAAGATCAGAAGTGAAGCTTGGAATA
CAGGACAAGCAAAACTGACGGTTCAAAATAAGGAAATCAAGGTAGGATGTGACGAAAAAT
TCCGGTTTATTAATTAAGAATTTTCCCCGAATCGAATAAATGAGAATTTCTGGGTAAACT
TGAAAACCCAATGCCGCTATAAGCAGCTTACGACGGAAGAGCTATGCTATGTTTACGTGG
TAAATTTCAAGTGAGAATAATGTATGAAGGGGAACTTAACATTAAGGCAAGCGAAAAATC
GTTGCCATTGATTATACGTGTACCTGATACTTAACCAGCACTTAGAGTACGGCGTGAGGC
ATCGGCAGTCGTGAGAAAACGCTTTTAGACTTGTCGGCTACAAGAAAGTGACGGTATATA
GCCCACCGTGGCCACTTTCTGTCAAACATCCGTGTTAGTGAACATAGAACTGTGTTGAAA
TCATAACAGGGTCTTAGTCGTTTTGCTGTAAGCGGTGCCGTATTATAGCTTCAAGTATCC
TTTGTGCCAAACCAATGCTCGTAGGCTTAGTGAGATAAACCCCGGACCAATTCCTGATCC
TGACCTAACTGTAAATCGTTCACAACAAAGATACGACTCGATCGTGGCGAGCAAACTCAG
TATCAAAGCGCCGGTGCTCGAAATTCCAAACGTCTTTGATGTTTCCTAAACATATCGTCG
CTGTTTTTCTCCACGCGTTCTTATAGCGATGACGTAAGTCTTTCCATAAATCATAGCGCA
AAAATGGAAACGGTTACGTAACTAATACGGATGTGGTATGCACCGTGGAAACATGTTACG
TTACTTTTAGTGCGCGTTACAAAATAGAGTGGGTTAGGGTAAAAATGTTTTTATTTTCGT
TCTCTTTTATCGTTCTATTAATCTATTTGGTAATAAACAAAGAATATTACAGATTTAGTA
GATTATGGGAAGATGGGACACATTTGCATTCTATTTTCTCGTTCCATTTGGTAGTAAACA
AGGAATATGAGATACTATGCGCTAACACTATACATCTTAACCCATAGTAGCATAGCATGG
ATTTTTATTGTTTCTTGTTCCCTCCGTGCCGGGAATTGTTATCAGTCAAAACAAACGCAA
CGAATCGGCCAAAATCTGCTTGTTCACATGCAAAACTGTCAACACAAAAGTGACAATTAC
CGAGTTTACACGCATGTAAAATTATTGTAAGAAACCCGATAAGGAGACCTACTTTATCGG
CCCCTTATCGTGGAGATTTGCAACACGCTCTAGCGTTTCAGCCGAAAGCTGTAAGCTTGT
ATAGTGTTATTGCTAATCACTGTTAGTTGTTGTTGTTGCTGAAAAATGAAGAAGTTATCA
GCAAAAAAAGTTGAGTTAGTGTTGGCAGTTTAATAATACTGAGCCGTTGAAAGTGTTGGG
TTAAAGATGCATCGAATACTGCTAGCTGGTTTGTGTTTATTCGT

Reference(s)

Horikawa et al. (2013). Transcriptional regulation in the early ectodermal lineage of ascidian embryos. Dev. Growth Differ. 55(9):776-85