Login
Help

CIS-REGULATION

Submit your Data

  1. Region 'REG00000562'

Cis-regulatory Region

Name

Ci-R1CiGC25b06 -2276/-42

Short name

n/a

Region ID

REG00000562

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Kusakabe team (2009-12-12)

Annotator

Delphine Dauga (2010-01-15)

Curator

Delphine Dauga (2010-02-26)

View position in WashU

Description

Conversion to aniseed format of DBTGR database entry from Kusakabe team.

Transcription start site is based on the start of the first exon of the JGI transcript model.

Note that there is a problem when we blasted the sequence against the JGI V1.0 whole genome assembly (you cannot visualize this sequence on the genome browser).

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.C3.598 (MS4A15)

Construct(s) made to test this region

CONS00000532: pCi-R1CiGC25b06 -2276/-42::EGFP

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

5,421,1385,423,372

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

Sequence

Aniseed Coordinates: [5,421,138 / 5,423,372] on scaffold KhC3

BASE COUNT 679a 427c 415g 714t others

Show sequence

Length: 2,235

GACGGATTTACAGCAGACATATTTTACAAATTTCACAACTACACTGTAATATGCGATAAA
TTTAATTATTGACTTTACTATTGATCCGCGATTTTCGACCTCACTCTACTATTTTTGGAA
ATCTGCCTGCTCAAAATCGATGTGCCTATGCCATTCTAGCAGCCTGAAACAAAGTAGTTG
GCGAACATTTACGTATGTAGGCTATTTTTAAGATACAATCTATTCAAGGTTATGATGTCA
CTACATTTAATACACTAATAGCAACAAGGTGTCTGAACTTGCCCTATTTAAGTTTCTAGC
ACAATAGTTGATTTAAGTCTAACCAGTCTGGATGTTCTGCTTGACTGCTTTGCCCTGCGG
TTGTTTTTGTCTGGCGAACTAGCTTAACACCACAGCAGTGAGTTCGGAATAACACCAAGG
AACCTCGTGCGCGAGACTCATACTGTGCGTCACAAAATGTAAATGACGTCAGAATTCCTC
AAGTACCCGTCGCCAAACTAGACGATAGTTTACTGTTTAATAACAAAATGAAAAACGAAT
TTATAACTTGGATTACTTGACGCAACCCCAACTTTTTAAAGGTTTATAGACTTGTTTTTC
ATAAAGAACCCTACCAGGAAACGCCTGTGCAACAAGGACAAGCAGTATTTGCTGGTCCAA
ATATTACAATCCAAAAGGTCTTGGAAGCCCACCAAATCGGGGAAAATGTCCCTCTTTGCC
CCCCAGAATACTCCCTATACTGAAAATGTTCCATTTGAAAGATGTAAAAATTGCTCGCTT
TGCAGCTATTGTGATACCAGTGTATATGTAACTGCTTTTGTTTTATATAACAATGTTACA
CGTGACGTATATACGCATAGTTGGGTGGGGAAAGACGAAACATTTTTTCATTCTACTTTT
TTGTCCCATTTGGTAGTAAACAAAGAACATTCAAGGAATCATAAAATCGCATCCTCATTA
CTCCTATAGACCTATGTTAATTGTTTAAAACACGATTCGAAAATTTAGATATTATGTGCC
AAAGATGTCCCATCTTACCCCACACCACTATAAGCGTGGTTTGAACGGTAGTCATACGCA
TTTACAAGCTTGTCCACAATCATTGTTTATGAACAGCTAGAACGCGGGTGTCATATTTCT
CACTTGGTGTAGTGTCTTCATACATGTCCTATTGTGCTTGCGAGTTGCCAAGTATGTGAA
TATTATTGGTGTTTTTATCGGCCACTGCTGCCAATTTGAAAAAGTCACGAGACGAAATCA
TAGCGTTATTTTGCCTGGGGGCACAAATGTGATGTTATGTTCAAACCACGAGACGGCAGT
GCTAGCCACTGCTGTGAGGACGTAGCAGTTGTTTAAGCTATTCTCTCAGTCAGTTCCATA
TGTCAGAGCTGTTTTCTCAGTTAAACATACAGATATAGATTTCTAATTATAACATCAGGG
CGTTTCAGTCAAACTTTTTCTGATTGTTTGTAGAATTTCAGATTATCATATATGTTTTAT
TTTGTACCATTAACGAAATACAGTATCATAGTTTGCTGGTGTGTAGTGTCAATCTTTCGC
ACTTTGCCAGTATTATCACGTCGTTATTGTGAATCAGATTTCCATCGCTATTGTGAATTT
AATGGGCACTGTTAAATTCTGACGTCACAGCGAGTTTTGTTGTGTCTCAGATTCCGCCAG
ACGAAAGCAGCCTAAAGGCACAAAGCAGTAAAGCTAGACTTACAGTTACTTAAAAGTTCA
AAACGGTCTTGTTTGACCCAGCATCGAATTTTTTTAAGATTGAAATTAGATTAGATAACA
AGAAACATTAAATAACGCGTCAGTTTTGCCATAAGAGTCCTGCTATTGATAAAGAGTTTT
GTTTTGCTAGTTCGGCATGGTACAAAAATATTACATTTTAATGCCAGTCTATAGTAGTAA
AGTGTTTCGTTGGTTACACAACCAAACGCTATGACGTAACAATGTGAATCAAATACGCGG
AACAGTGACATGCTCACGTGATTTGCTAGCTTAGAGTAAAAGCCCACATAGAGGTTTCCG
GAAGCACGTCACTAATAACTGCATTAATTTATTTAAGGCGACCAGTCAGCATGCGCTAGA
AACAATCTGCAGACGTGGCCTATCTGTTAACTGTTTAAAATAAATCATTAGTTTGAAATG
AGGTCTGGAACGAGTACTATAACCAATAGATGTTTTTATTTTATTGATAATATTACTGCT
AGCAAATGACTCGTA

Reference(s)

Sierro et al. (2006). DBTGR: a database of tunicate promoters and their regulatory elements. Nucleic Acids Res. 34(Database issue):D552-5

Back to Top