Table 1. Sequences of oligonucleotide (oligo) primers.

Primer type	Sequence (all listed as 5′→3′)
In vivo footprinting
Linker adapter (equimolar amounts)	GCGGTGACCCGGGAGATCTGAATTC (also used in LMPCR) and GAATTCAGATC
For the non-transcribed strand
Extension oligo	CAAGCAGTCAGCAGAGGATT
PCR and hybridization oligo	TGGCCAGACTTTGTTTCCCAAGGGTCA
For the transcribed strand
Extension oligo	GTAAATTACCGTTCCTCCCT
PCR and hybridization oligo	TCGGGTTGCGGACGCTCCA
EMSAs
Forward	CTGTTCCGCCTGGCCCACGTGACCCGCCGAGCATAA
Reverse	TTATGCTCGGCGGGTCACGTGGGCCAGGCGGAACAG
Site-directed mutagenesis
pHOGH/4.5 E-box M1
M1 forward	CTGTTCCGCCTGGCCCACGTGAtCCGCCGAGCATAA
M1 reverse	TTATGCTCGGCGGaTCACGTGGGCCAGGCGGAACAG
pHOGH/4.5 E-box M2
M2 forward	CTGTTCCGCCTGGCCCAtGTGACCCGCCGAGCATAA
M2 reverse	TTATGCTCGGCGGGTCACaTGGGCCAGGCGGAACAG
pHOGH/4.5 E-box M3
M3 forward	CTGTTCCGCCTGGCCtACGTGACCCGCCGAGCATAA
M3 reverse	TTATGCTCGGCGGGTCACGTaGGCCAGGCGGAACAG
pHOGH/4.5 Δ E-box
Del E-box F	CATCAGCTGTTCCGCCTGGCCGCCGAGCATAAATGTG
Del E-box R	CACATTTATGCTCGGCGGCCAGGCGGAACAGCTGATG
ChIP
For the proximal E-box
Forward	TTGCAACGCCCGGCCAGAAA
Reverse	TCGGGTTGCGGACGCTCCA
Nested hybridization oligo	ATAAATGTGACCGGCCGCGGCTC
For the internal E-box
Forward	GATGACACTGAGGCTCAGA
Reverse	GCTGAAATCGGTCTTGGTTGATTTCAGCC
Nested hybridization oligo	GGTCACACAGTAAGTTCAGCCTGCTCT