TABLE 1.

Primers and probes^a

Transcript or assay	Forward primer	Reverse primer	Probe and/or amplicon size (bp)
Human cyclin A1	CTC CTG TCT GGT GGG AGG A	CTG ATC CAG AAT AAC ACC TGA	AGA GTG GAG TTG TGC TGG CT, 382
Human β-actin	TAC ATG GCT GGG GTG TTG AA	AAG AGA GGC ATC CTC ACC CT	ATC GAG CAC GGC ATC CTC AC, 218
Bisulfite cyc-A1 1.PCR	GTA GGA GAY GTT AGA GGG GGT TGT TAG	CCC CAA TAA AAA ATC CAA AAT ACA TAA TTA	772
Bisulfite cyc-A1 2. PCR	GAT TTA ATA GAY GYG GGT GGG TAG TTT AGT	ATC CCA AAT AAC RAA CAA AAT ACT AC	356
Bisulfite GFP-cycA1 1. PCR	Similar to bisulfite cyclin A1 1.PCR	ATA ATA CAA ATA AAC TTC AAA ATC AAC TTA	961
Bisulfite GFP-cyc-A1 2. PCR	Similar to bisulfite cyclin A1 1.PCR	CAA CTC CTC RCC CTT ACT CAC CAT AAT AA	470
Human cyclin A1 (TaqMan)	GGG CTC CCA GAT TTC GTC T	CTG CAG TGC ATT GCT TCA GA	CCA GCA GCA GCC CGT GGA, 58
Human MeCP2	ACT CCC CAG AAT ACA CCT TGC TT	TGA GGC CCT GGA GGT CCT	TGT TAG GGC TCA GGG AAG AAA AGT CAG AAG A, 112
Human MBD-1	CCT GGG TGC TGT GAG AAC TGT	TTG AAG GCA ATT CTC TGT GCT C	CAG CTT CTC AGG GGA TGG CAC CCA, 106
Human MBD-2	AGT GAA ATC AGA CCC ACA ACG AA	CAT CTG ATG CAC TAA GTC CTT GTA GC	AAT GAA CAG CCA CGT CAG CTT TTC TG, 85
Human MBD-3	GTA TGG CTC AAC ACC ACG CA	AGC ATG TCG GCC ATC AGC	ACG AGG ACA TCA GGA AGC AGG AAG AGC T, 127
Human MBD-4	TCT AGT GAG CGC CTA GTC CCA G	TTC CAA TTC CAT AGC AAC ATC TTC T	CCG CCG AAT GAC CTC CGC A, 68
Human GAPDH	GAA GGT GAA GGT CGG AGT C	GAA GAT GGT GAT GGG ATT TC	CAA CGT TCC CGT TCT CAG CC, 226
Murine MeCP2	GAA GTC TGG CCG ATC TGC TG	ATG CAA TCA ATT CTA CTT TAG AGC GAA	88
Murine MBD-1	TTG TGG AAT CCA CTT TTC ATG G	CAG CCG ACT CGC TTA AAC ATT	122
Murine MBD-2	GCA GAG ACT CCG GAA TGA CC	CTG GTT GCT TGA AAA TTG ATG C	100
Murine MBD-3	CGG CCA CAG GGA TGT CTT T	TCA TCA ACA TCT TTC CGG TGC	130
Murine MBD-4	AAA TGC CCA GCT GCT CAC A	AGC TTC TTT GTT GTA CTT GCT GGA	130
Murine MBD-2-testis specific	Identical to murine MBD-2 forward primer	GGA GCA GAG AGG TGC ACA CA	97
Murine GAPDH	ACT GGC ATG GCC TTC CG	CAG GCG GCA CGT CAG ATC	TTC CTA CCC CCA ATG TGT CCG TCG T, 62

^aAll oligonucleotides are shown in 5′-to-3′ direction. Probes for RT-PCR Southern blotting were labeled with digoxigenin. Probes used for the 5′ nuclease (TaqMan) assay were labeled with VIC (both GAPDH probes) or with FAM (all others) at the 5′ end and with the quencher dye TAMRA at the 3′ end. Real-time quantitative RT-PCR for murine MBD proteins was performed with SybrGreen. In these cases, the presence of a single specific band was demonstrated by electrophoresis on a 3% agarose gel (data not shown).