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CIS-REGULATION

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  1. Region 'REG00001589' > 
  2. > 
  3. Transcript 'KH2012:KH.S390.6.v3....' > 
  4. Region 'REG00001587'

Cis-regulatory Region

Name

Cirobu.REG.Kh2012.S544:4199-5236|Dmrt1

Short name

Dmrt1_-924bp (Tokuhiro et al., 2017)

Region ID

REG00001587

Status

Curated

Origin

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

Type of Activity

regulatory_region
(extended_promoter)

Author

Shin-ichi Tokuhiro (2023-03-10)

Annotator

Lea Girard (2023-03-10)

Curator

Lea Girard ()

View position in WashU

Description

Hierarchy of Regulatory Regions

Regulated gene(s)

KH2012:KH.S544.3 (DMRT1; DMRTA1; DMRTA2)

Construct(s) made to test this region

CONS00001676: p.Cirobu.REG.Kh2012.S544:4199-5236>LacZ

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

4,1995,236

Motif Name Binding Factor(s) Sequence Position in Region Comment
1 Fox KH2012:KH.C8.396
TGTTTAC [4,766 / 4,772] This Fox binding site is located on the Dmrt1 924bp cis-regulatory region.

Sequence

Aniseed Coordinates: [4,199 / 5,236] on scaffold KhS544

The authors indicate that cisreg -924bp corresponds to 4199-5237 but a BLAST search indicates different coordinates (4199-5236). There is two TSS and one putative FoxD binding site in this cis-regulatory element. The sequence is 1037bp long from the first TSS and 924bp long from the second TSS of Dmrt1. This cis-regulatory element is active in the anterior neural a6.5 and vegetal cells.

Show sequence

Length: 1,038


AACTTCGGTTATGCTTCGCCGGAGAGTTAAAATCATCATTATAGTAGGGTGGAGGAAGAT
GGGACACCTTTGGCACATAATATCCAAATATCCTTACCCCGTTTTACACAATTAACAGCG
GTATATGGGAGTCGTAAGAATTCCGTTTTATAATTATTTGCATGTTCTTTGTTTGCTACT
AAATTGGACGACAAAATGTAGTCAAAAGGTGTCTAATCTTCCCCTACCCTACTATACGAC
TTGGGGCATAGTTATAAAGTTATTCCGTTTCATTTCTTGGCGTTAACCCGACGATCAGTA
ATTAACGATATTCTTCATAAATAAATAATGCGAGAACTGCAACAGGACTAGGGAAGTTAC
TTAAGCGAGCATGTGATTAGAAATTGCCACTGAAGCACTTTAAAATGCCGCCAAAACACA
TACACCTTCATGACACATTGTTTTACAGAATCTCAATTTAAAACCCGTCGACAATTATCG
GATTTCCGCCGCAGAGTCACAGGAAGTTGTTTTGCTTAATAATACTTGTTTTAGATAAGC
TGTTATGTTGCTCAATGAATAACAATAATGTTTACGTTGGTTGTTGTGGCAATGTACATT
GTAACTTCCACAAACCTCTCAGAGGGCAAACACATTAAGCAAACTGAATTTGCCAAGTAC
TTCGGGAAGTCACTGATAAGCGGACAATACGAAGCGATCACAGGGAATTGTCGCACGCCA
GAATGTAAACAAAAACATCGCCTGTGCACCGCGCGATCGAAGACACACAGCGCTGACTAA
TTGACCAACACAAAAGCGAGGAAAGAAAAAAAAGCGAAAACGAGAACGGGATATTAATTG
TACACGATTGTGACGTAAATTCGAGGCATTTTTTCTTCCGAAATCGAGCGGTTTAAATAC
CTCGCGTCTTTATTAGGTACAATCATATTGCCTTGATACCTTGCTTAGAACAGTGAATAC
ATATAAATCGTATTAAAAGCTTTAGAGTGTTAAACCAAAGAGTTACAGAAATTATAGCAA
ACAGTTCGTTTAACTGGC

Reference(s)

Tokuhiro et al. (2017). Differential gene expression along the animal-vegetal axis in the ascidian embryo is maintained by a dual functional protein Foxd. PLoS Genet. 13(5):e1006741

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