CREGS00041

From CREGS

Sequence Logo (What is a sequence logo ?)

IUPAC Consensus Sequence (What is the IUPAC code ?)

HNYYNCBY[1]

Regulatory element length

8 base pairs

Status

Computationally predicted

Predicted by MEME, ST algorithm

Description & Comments

Motif appears upstream microRNAs. Conserved in briggsae.

Similarity to other CREGS motifs

CREGS00075 (0.815 Rev. Comp. ) CREGS00069 (0.903 Rev. Comp. ) CREGS00043 (0.984) [[| (0.000)]]

Similarity to motifs in other organisms

Motif bound by

Expression Pattern

• Expressed
• Tissues & cells:

References

1. Ohler U, Yekta S, Lim LP, Bartel DP, and Burge CB. Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification. RNA 2004 Sep; 10(9) 1309-22. doi:10.1261/rna.5206304 pmid:15317971. PubMed HubMed [KEY-15317971]

All Medline abstracts: PubMed HubMed

Motif Representation Formats

Information Content Matrix (Total IC 15.5295 )

A [  0.03 0.06 0.00 0.00 0.12 0.00 0.00 0.00 ]
C [  1.74 0.29 1.82 1.88 0.15 1.91 1.65 1.44 ]
G [  0.00 0.18 0.00 0.00 1.65 0.00 0.12 0.00 ]
T [  0.18 1.41 0.12 0.06 0.06 0.00 0.18 0.50 ]

Position Frequency Matrix

A [    0   0   0   0   1   0   0   0 ]
C [   11   2  11  12   1  12  10   9 ]
G [    0   1   0   0  10   0   1   0 ]
T [    1   9   1   0   0   0   1   3 ]

Position Weight Matrix

A [  -2.16 -2.16 -2.16 -2.16 -1.05 -2.16 -2.16 -2.16 ]
C [   1.62 -0.43  1.62  1.73 -1.05  1.73  1.49  1.35 ]
G [  -2.16 -1.05 -2.16 -2.16  1.49 -2.16 -1.05 -2.16 ]
T [  -1.05  1.35 -1.05 -2.16 -2.16 -2.16 -1.05  0.00 ]