Table 4 Primers used for real time RT-PCR, quantitative ChIP, and bisulfite sequencing.
From: A distinct epigenetic signature at targets of a leukemia protein
Primer name | Orientation | Sequence |
|---|---|---|
Real time PCR primers | Â | Â |
γ-Actin | sense | 5'-GCCGGCTTACACTGCGCTTCTT-3' |
| Â | antisense | 5'-TTCTGGCCCATGCCCACCAT-3' |
F2rl3 | sense | 5'-GCTTCTGATCCTGGCAGCATG-3' |
| Â | antisense | 5'-GTGTCACTGTCGTTGGCACAG-3' |
Fcer1a | sense | 5'-CCCTTTCCTGCTATGGGAACA-3' |
| Â | antisense | 5'-GCAGCCAATCTTGCGTTACATT-3' |
Ptprcap | sense | 5'-GGATGAAGAGGATGCAGAAGAT-3' |
| Â | antisense | 5'-CTGACTCCTATAGTGCAGTGAC-3' |
Tcfec | sense | 5'-AGTCTAATGATCCTGATATGCGC-3' |
| Â | antisense | 5'-TCCTGAATCCGGAGCCTAAGC-3' |
Mgmt | sense | 5'-GAACTTGGCAGAATGGCTGAG-3' |
| Â | antisense | 5'-GGTGATGGAGAGCAGGCAA-3' |
ChIP primers | Â | Â |
Ptprcap- AML1-consensus | sense | 5'-GTCCTGCAGCTGGTGTTTACAG-3' |
| Â | antisense | 5'-CTGGTCTCTGAGTGGCTGCA-3' |
Ptprcap-transcription start | sense | 5'-GAGGTCTGACAAGTTAGCTGTA-3' |
| Â | antisense | 5'-ACCCTGTAACTCACTTCTCACT-3' |
Tcfec- AML1-consensus | sense | 5'AGAGCTTGACTAGAATGGATTT-3' |
| Â | antisense | 5'-GGTGCAACCCATTCATGGCTT-3' |
Tcfec-transcription start | sense | 5'-AGTCACACCACTGGAGTAGTTTT-3' |
| Â | antisense | 5'-CCCTCGTCTCATAACCTAAGCA-3' |
Fcer1a- AML1-consensus | sense | 5'-GGCCACTGACTTCAGTGTGAA-3' |
| Â | antisense | 5'-TGCATTCCAGTTCTCTGCAAGA-3' |
Fcer1a-transcription start | sense | 5'-AGGTGTCAGCTGAAGGTACAATA-3' |
| Â | antisense | 5'-CCCACCATGACACTCTCTAAAT-3' |
F2rl3-AML1-consensus | sense | 5'-AGGGTGTCTCTCTGAATCTGGA-3' |
| Â | antisense | 5'-GGCAAGTCTGTTATCTCAGCAT-3' |
F2rl3-transcription start | sense | 5'-TTGGAGGAAGGCTGGATTGTTAT-3' |
| Â | antisense | 5'-CCCATTGGGATCTGCTTGCTCA-3' |
Mgmt-AML1-consensus | sense | 5'-GAGCTGCACACTGGGAAGATG-3' |
| Â | antisense | 5'-GTGTACCAGATGCTGTGCAGG-3' |
Mgmt-basic promoter | sense | 5'-CAGTTTCAGGTCTGGAAGAAGAG-3' |
| Â | antisense | 5'-AGCTGTGGGCTTGTAGTCCGAG-3' |
Control region | sense | 5'-ATGCAACACACAACAAAGCAAA-3' |
| Â | antisense | 5'-GGCCAAATGAGGTTGTGTCCT-3' |
Bisulfite sequencing primers | Â | Â |
Mgmt-CpG-1st PCR | sense | 5'-TAGTGATTGGATTTTTAGTGGGT-3' |
| Â | antisense | 5'-CTATCTCCCTAAACTTCAACTC-3' |
Mgmt-CpG-2nd PCR | sense | 5'-GTGAGAAGGTGTAGTTTAGTTT-3' |
| Â | antisense | 5'-CTCACCAACTTACAAACTACAA-3' |