All and only CpG containing sequences are enriched in promoters abundantly bound by RNA polymerase II in multiple tissues

Table 1 Association of the 10 localized motifs with RNAP binding and mRNA expression.

Motif	Sequence	8-mer-association-with-RNAP	8-mer-association-with-mRNA expression
BoxA	TCTCGCGA	1.30	2.50
NRF-1	GCGVTGCG	1.24	2.44
ETS	VCCGGAARY	1.21	2.39
CRE	TGACGTCA	1.19	2.32
SP-1	CCCCGCCC	1.14	2.38
E-Box	YCACGTGA	1.10	2.28
CCAAT	RRCCAATSR	1.04	2.27
KLF	CCCCTCCC	1.04	2.28
TATA	TATAAAD	0.96	2.22
CRE-T	TGATGTCA	0.90	2.17

Column one contains the name of the motif; column two contains the DNA sequence of the motif; column three is the 8-mer-association-with-RNAP for promoters (-1,000 bp to +500 bp) commonly bound by RNAP in the three tissues examined ranked in order by association; column four is 8-mer-association-with-mRNA-expression.

ISSN: 1471-2164