CREGS00056 (DAF-12 Version 1)

From CREGS

Sequence Logo (What is a sequence logo ?)

IUPAC Consensus Sequence (What is the IUPAC code ?)

NNNNNNNNN[1]

Regulatory element length

9 base pairs

Status

Tested in vivo

Predicted by Improbizer

Description & Comments

Similarity to other CREGS motifs

CREGS00064 (0.809 Rev. Comp. ) [[| (0.000)]]

Similarity to motifs in other organisms

Motif bound by

DAF-12

Expression Pattern

• Expressed
• Tissues & cells:
  • pharynx

References

1. Ao W, Gaudet J, Kent WJ, Muttumu S, and Mango SE. Environmentally induced foregut remodeling by PHA-4/FoxA and DAF-12/NHR. Science 2004 Sep 17; 305(5691) 1743-6. doi:10.1126/science.1102216 pmid:15375261. PubMed HubMed [KEY-15375261]

All Medline abstracts: PubMed HubMed

Motif Representation Formats

Information Content Matrix (Total IC 10.503 )

A [  0.19 0.22 0.01 1.63 0.00 1.89 0.01 0.62 0.10 ]
C [  0.00 0.00 1.89 0.07 1.03 0.01 1.63 0.00 0.06 ]
G [  0.10 0.17 0.01 0.01 0.23 0.01 0.06 0.19 0.02 ]
T [  0.16 0.09 0.01 0.01 0.00 0.01 0.01 0.06 0.03 ]

Position Frequency Matrix

A [    5   6   0  11   0  12   0   8   6 ]
C [    0   0  12   1  10   0  12   0   3 ]
G [    3   4   0   0   2   0   0   3   1 ]
T [    4   2   0   0   0   0   0   1   2 ]

Position Weight Matrix

A [   0.60  0.83 -2.16  1.62 -2.16  1.73 -2.16  1.20  0.83 ]
C [  -2.16 -2.16  1.73 -1.05  1.49 -2.16  1.73 -2.16  0.00 ]
G [   0.00  0.33 -2.16 -2.16 -0.43 -2.16 -2.16  0.00 -1.05 ]
T [   0.33 -0.43 -2.16 -2.16 -2.16 -2.16 -2.16 -1.05 -0.43 ]