CREGS00063

From CREGS

Sequence Logo (What is a sequence logo ?)

IUPAC Consensus Sequence (What is the IUPAC code ?)

TRTTKRY[1][2]

Regulatory element length

7 base pairs

Status

Tested both in vivo & in vitro

Predicted by Improbizer

Description & Comments

Similarity to other CREGS motifs

Similarity to motifs in other organisms

Motif bound by

Expression Pattern

• Expressed
• Tissues & cells:
  • pharynx;foregut;rectum;hindgut

References

1. Gaudet J and Mango SE. Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4. Science 2002 Feb 1; 295(5556) 821-5. doi:10.1126/science.1065175 pmid:11823633. PubMed HubMed [KEY-11823633]
2. Kalb JM, Lau KK, Goszczynski B, Fukushige T, Moons D, Okkema PG, and McGhee JD. pha-4 is Ce-fkh-1, a fork head/HNF-3alpha,beta,gamma homolog that functions in organogenesis of the C. elegans pharynx. Development 1998 Jun; 125(12) 2171-80. pmid:9584117. PubMed HubMed [KEY-9584117]

All Medline abstracts: PubMed HubMed

Motif Representation Formats

Information Content Matrix (Total IC 10 )

A [  0.00 0.50 0.00 0.00 0.00 0.50 0.00 ]
C [  0.00 0.00 0.00 0.00 0.00 0.00 0.50 ]
G [  0.00 0.50 0.00 0.00 0.50 0.50 0.00 ]
T [  2.00 0.00 2.00 2.00 0.50 0.00 0.50 ]

Position Frequency Matrix

A [    0   6   0   0   0   6   0 ]
C [    0   0   0   0   0   0   6 ]
G [    0   6   0   0   6   6   0 ]
T [   12   0  12  12   6   0   6 ]

Position Weight Matrix

A [  -2.16  0.83 -2.16 -2.16 -2.16  0.83 -2.16 ]
C [  -2.16 -2.16 -2.16 -2.16 -2.16 -2.16  0.83 ]
G [  -2.16  0.83 -2.16 -2.16  0.83  0.83 -2.16 ]
T [   1.73 -2.16  1.73  1.73  0.83 -2.16  0.83 ]