Long-range transcriptional regulation by the p110 CUX1 homeodomain protein on theENCODE array

BMC Genomics

Table 13 Identification of DNA motifs close to CUX1 binding sites with theATCRAT consensus

Entry	Motif	Reverse complement	E-value	Match in Table14	Factors
1	CNGCCTCC	GGAGGCNG	2.9E-168	Entry 3	-
2	CTGTARTC	GAYTACAG	2.5E-161	Entry 1	-
3	CAGGCTGG	CCAGCCTG	3.7E-145	-	-
4	AAAWAMAA	TTKTWTTT	6.1E-135	Entry 2	Srf, Elf3, Tcfap2e
5	TGCAGTGR	YCACTGCA	4.6E-115	Entry 6	Zbtb3
6	CCAGCTAC	GTAGCTGG	8.9E-109	Entry 4	-
7	GAGACRGR	YCYGTCTC	1.6E-108	-	-
8	BGYGGTGG	CCACCRCV	2.6E-92	-	-
9	CTCCYGMC	GKCRGGAG	1.7E-86	Entry 5	-
10	CAAAGTGC	GCACTTTG	2.1E-71	Entry 10	-

10 Most enriched DNA motifs found within the 500 bp regions oneither side of CUX1 binding sites that contain the ATCRAT CUX1consensus. Column 5 lists Table 14entries whose motifs are very similar (max. 1 mismatch). Proteinswith DNA binding motifs highly similar to the motifs are listed inthe rightmost column. K = G/T, M = A/C,R = A/G, Y = C/T, S = C/G,W = A/T, B = C/G/T, V = A/C/G,H = A/C/T, D = A/G/T.

ISSN: 1471-2164