CREGS00014 (SKN-1 Version 2)

From CREGS

Sequence Logo (What is a sequence logo ?)

IUPAC Consensus Sequence (What is the IUPAC code ?)

NDNHATATBNN[1]

Regulatory element length

11 base pairs

Status

Tested in vitro

Predicted by Experiment

Description & Comments

Similarity to other CREGS motifs

Similarity to motifs in other organisms

Motif bound by

SKN-1 [1]:Also known to bind:

CREGS00013_(SKN-1 Version 1)

CREGS00014_(SKN-1 Version 2)

Expression Pattern

• Expressed
• Tissues & cells:
  • early embryo
  • gut

References

1. Blackwell TK, Bowerman B, Priess JR, and Weintraub H. Formation of a monomeric DNA binding domain by Skn-1 bZIP and homeodomain elements. Science 1994 Oct 28; 266(5185) 621-8. pmid:7939715. PubMed HubMed [KEY-7939715]

All Medline abstracts: PubMed HubMed

Motif Representation Formats

Information Content Matrix (Total IC 10.434 )

A [  0.05 0.35 0.10 0.14 2.00 0.00 2.00 0.00 0.00 0.09 0.05 ]
C [  0.07 0.00 0.02 0.11 0.00 0.00 0.00 0.00 0.19 0.06 0.02 ]
G [  0.02 0.05 0.04 0.00 0.00 0.00 0.00 0.00 0.13 0.02 0.02 ]
T [  0.02 0.30 0.12 0.25 0.00 2.00 0.00 2.00 0.13 0.05 0.05 ]

Position Frequency Matrix

A [    4   7   5   4  14   0  14   0   0   6   5 ]
C [    6   0   1   3   0   0   0   0   6   4   2 ]
G [    2   1   2   0   0   0   0   0   4   1   2 ]
T [    2   6   6   7   0  14   0  14   4   3   5 ]

Position Weight Matrix

A [   0.15  0.84  0.42  0.15  1.75 -2.25  1.75 -2.25 -2.25  0.64  0.42 ]
C [   0.64 -2.25 -1.20 -0.17 -2.25 -2.25 -2.25 -2.25  0.64  0.15 -0.60 ]
G [  -0.60 -1.20 -0.60 -2.25 -2.25 -2.25 -2.25 -2.25  0.15 -1.20 -0.60 ]
T [  -0.60  0.64  0.64  0.84 -2.25  1.75 -2.25  1.75  0.15 -0.17  0.42 ]