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CIS-REGULATION

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  1. Transcript 'KH2012:KH.C1.188.v2....' > 
  2. Region 'REG00001023' > 
  3. Transcript 'KH2012:KH.C14.43.v1....' > 
  4. Clone 'cijv017c06' > 
  5. Region 'REG00001405'

Cis-regulatory Region

Name

Cirobu.REG.KH2012.C2.5506855-5510677|Gsx

Short name

n/a

Region ID

REG00001405

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Clare Hudson (2018-05-28)

Annotator

Marion Gueroult-Bellone (2018-05-28)

Curator

Marion Gueroult-Bellone ()

View position in WashU

Description

This cis-regulatory region drives gene expression in a10.66 and a10.65 cell pairs at neurula (stage 14) and in a9.33 cell apir at late gastrula (stage 12).

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.C2.917 (GSX1; GSX2; HOXA3)

Construct(s) made to test this region

CONS00001569: p.Cirobu.REG.KH2012.C2.5506855-5510677>(GFP)x2

CONS00001427: p.Cirobu.REG.KH2012.C2.5506855-5510677>NLS:LacZ

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

5,506,8555,510,722

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

Sequence

Aniseed Coordinates: [5,506,855 / 5,510,722] on scaffold KhC2

Sequence derived from Ciona robusta cosmid library RZPD 119 (Burgtorf et al., 1998) also described in (Ferrier and Holland, 2002). This region covers 3857bp upstream of Gsx TSS and 11bp downstream. 98% percent sequence homology between cosmid-derived sequence compared to the reference genome (Cirobu.REG.KH2012.C2.5506855-5510677|Gsx) except that there is a 55bp insert in the cosmid sequence (in small letters) relative to the reference genome. This sequence corresponds to -1452 to -1398 of the pGsx[-3857,+11] sequences and is at position KH2012.C2.5509258 in the reference genome.

Show sequence

Length: 3,868

CCACatCTTTGCTATCATTCTGAACTTCTTTATTTGATGAAAAAATCGTCTCCATCGAAT
GTTTTTTAATAAAACTTTCAGTTTTCTTTTTGCAAACCCGTTCTTTCTTAACACCAAATG
AGTTTAGTAGTAGTCCAACATTTGGATCAAATGTAAATAACTCTTGTAACAAAGTCTTCC
TCATTTCTTTATCTTTGCTATTATCCTTCAGCATTTCAATTATTTGATTTAGGTGTTCAT
TAAAAGATTCTGCACAGTTTGAAATTAAACCAGTGTAACAATATTCCACAATCGATTCAr
AGATTTTCGGAACATCTAGTGTTCTTCGTTTTTCTATTAAACTCGCTTCAAGACCATTTT
GTAAATCAGCAACATCTTGATTTAATGTCTCCTTTGCCACAGTACCTTCACAACTAACTT
GTTCTATGTTTATCGGCATTTCTCCCAGCACTGCCTCCATCACACAACTGTGCACAAGCA
AGTGTCTGCCATCCCCAGCTTCCAAATCATTTTCACAAACACGAAGTTCAAGATTACAGT
GTTTACTATCCGACAACCGCTGTTGATTCAATCCATCTACAACTTTCCGATAATGACCTT
CCAATGTTTCCTCCTTTTTCAATGCTTTATATTTTTCAAAAGCATCTAACAAAGTTTTTG
CAAATTCATCATCAGTTAAACCGGTACTTTCCTTGCTAGATGTCCACAGCGAGTAAGTAT
CATCAGAAAGCTGAATACTCTTCATACGATTAAAATAATGTTTAGCCATTATTTATAACT
ATGCACTTGATGACATTAACACCTAGATTGTTGTCTATGTGACTTAGTGGCTACACAGCA
CATTTTGCTATCACGATCCTGTAATTTAAACGTCATTATTTATAATTATTTATTTAACAG
TGTTTTTTAAGGGTGCCGCTAATTTTTGAAAGCTATTATACATCACATTAATGAATAGAT
TTTTTAAAATTTACTGTAACTGAAATACTGTAATTTAAAAAAACAATTTAAAATCTCCCT
GCAAAAAGGTAAATAAAGTTTTATCTTAAATGCTCGCATGCAAAAAATCCCCTATGACGT
TACAACATATTTCATCATTATACTAATAAAGGGGAGCTTGTTAAAACGCAATAAATGTTA
AACTGAAACGAAATTAATTCAAAGTGTCTTACCAACGAACACAAAACTTACGTAATAGTA
GATGCATAAATCTAAGTATTAAAATTATTTATTGATCAAAATTTGTAAGAAATTTAAACT
GTCCTGTCTTACCCTGTGTACTTTGAAATTGGTAAAATTGAACGAATAGATAATTGTGCG
AATCGCTAAACACTCTCTCGCGTGTTTTGATATATATATTTTGAAATTTTTTGTCAATCA
ATAAAGGTATGATAGTACCAGTTCGTGGTATCACACAAAAAAGTCATATATTTCGATTTT
GGAAATATTGAACAATCTGTGTCCCGTCTTTCCCCACTCTAATATACAATATTGGTATCA
TAAAGCCTATCTTCAGATATATATCAGTGTAATGTTTCTTACATGCTATGCGTCCCTATA
CTGTCATAAGTATACTCATTAGCTGTAAGCGTGGGAAATTTAACATTGTGCACATAATGC
TTTGTAATTGCTACAATATAACGTGGATAATGAATATAGCATAAAATGAATATCATCTAC
AAATATGCATAGCATGTATATTTTGTAGGATTGAGTAGCGAGTAGCATAAAACATGTTTC
ATTCTCCTTTCTCGTCTCATTTGGAACTAAACAAAGAGTATTGACAGAATTTTGTAAAGG
TAGTCCGGTGGCTCTGAAAAAAAGTTGTTAATTGTTAAAAACACGGTCAGGATTTGGATA
TTAAGTACGAAAGGTGTTTCATCTTACCCTGCAGTAAAATTTCTTGTAACATGCTGTGTT
TAGTATCTCGATCGTAAACTATACCTGAACGGGCTGATTGACTTAGCGGTACGGCGTTCC
GCTGGGTTCGGATTTAAATCTACTCTTGAATTTGCATGAAATTAAGGTCAGTTTCAATTA
ACGGATGTTTCTCAAATTCTAATGTTGTAGAAAACAAAGGCATTGCATTTACTGAGCACT
TAGTGCGTGGGGTATAAAATACATTTCCATGTTTCGTCGTTTTATTTCTTTTTAAAAATA
TAATCCTGCAGATAAGCCACGAAATGGACTAATCAACCGTTAACTAAGATTATAGCAATT
ATTTCAACGTTTTCCAGAATTATTCAGCGATTTTATTGTGGCTGATTTCCCCTTCTTTGT
TTTCTACATTAGAGCATTTGATTTTAAATGGGGGGATTATTATTTTCCGCTTGGAAAATT
ATTGCCTCAACCAATTAATGAACAAAAAACATATATACGCCATGTTGAAATCTGACGCAA
CGCGCtaatttatataggaaataaaycgctggactaaatcaggcatattaaaaagctgat
GATATAAGAATATTACTGGTAAGCAACATTATAACTGAAAAATCTTTTTAGTTCGAAACG
ATTTTTAATAAGTTTAAATCGAAAACTTCATGGTGCCTGCTTACGTATTAGAGTAAGGGG
ACGGGATACCGTTTATAGCACATAATATCCAAATATACTGATCGTGTATATTTAGGAGCT
TGAGGATACGGTTTTATAATTTTTTCAATACTTTTTGTTTACTACCAAACAGGACGATAA
CGAAAAGGTGTCCCATCTTCACCCCATACTATAAATCAGGTTAAACGAATGATTTAGAAT
ATAAATAAAAAACGATTTGAACGAAAGTCAAAAGGTTATATAACTACAGCAAACCGATTG
GTGCATATAGTTTGATCTGTTTCGGTACAAAAAATGATCTCAAAAATACCCGGATGCTCT
AAATGTACCTTTTAAAACAATCAAATACCTTTTTCACGAGTTCCAGTAAAAGAATGCAGA
AAAATCTAACCTAATTATATTTAACTAATTACAAGCAACTGCATGAACAGAGTATAAAAT
GAATCGTCCGATCGTTAAAGTTTCCATGGGTAACTCAGCATGCGTTCAGAGCGGCGATTA
ATTGTGGATCGAATAAGCGATCGGCGGTGTGAATATCGACAAGAGATTTTTAAATAACAA
GCGTGTGAACGTCCACTTGAGCAGTACATTGGATATTACCACGCTGTGTTATTGTCTTAA
GCACCGCATCAAAACCGGGGTATATACCCACTTGATTAAATGATCAGCGATCTACTCAAC
AGAATGATTGATAATCACTTGATGATTTTATGAAGATTTGTCTCTGGGAATTGGTCAAGT
ACACGCACATCTTTATTAATTTTTAGGTATTCTTAGTATATAATGTACATTTAACAAAAT
CCCAGATTTCAGAATTGATCAACCGCGTCAAAAAAGGTTTTATGAGTTTACTTGCTATGT
AAATTTATTCTGATAATCTATTAAAGAAAAACTTTCTTGTCAAAGCAAAAAAGATTTACA
AGCGGATATTTACAGATCCTAAACCGACTACCGGTTAATTGTAACGGAGATTTAAACAAG
GTCGCTGAAACACACACTCCCGCCACGAGCAAGTGGAACGCGCTGCTGATTTCACTTCCC
TGGTCTCCAACTGTCATCAAACAATTAAGCCGGCGATCCGGGGTTCGATATTTTCCCATG
GTCGGCGCTGCTAGATCGCGAGTATCGAGCAGCTTATGATCGCCGTTTAAACCGATTTGT
TTCCATGATCTAGTAATTTGGCTCGTTCGATTGACGCCAATTAATCCAAGCGCTGAAAAA
AGCAGGGCGCGAATCAGCGTTTGAATATCCAAGCATGTAATGTCGTTGCTAGTTATTCCA
AAGGCAGGTTAATTGCATGCAGCAGACG

Reference(s)

Vassalli et al. (2021 Mar 18). Onecut regulates core components of the molecular machinery for neurotransmission in photoreceptor differentiation. Front Cell Dev Biol eCollection 2021(9):602450

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