Table 2.
Primers used in this study
| Probe or primer (sequence locationa) | Directionb | Sequence |
|---|---|---|
| SCR1 Northern probe (−242 to +283 of SCR1) | F | 5′-CAACTTAGCCAGGACATCCA-3′ |
| R | 5′-AGAGAGACGGATTCCTCACG-3′ | |
| SNR47-YDR042C Northern probe (−325 to −33 of YDR042C) | F | 5′-CTGTTTCTGTTTCGCGTCGGGATAAC-3′ |
| R | 5′-GACAAACATGAAGAAGATATAAGTGCGTG-3′ | |
| SNR48-ERG25 Northern probe (−746 to −191 of ERG25) | F | 5′-CCTTGGCGCAGAAGACTTTCTCTTC-3′ |
| R | 5′-CTTGTATGCGTACGCCTGTGTATGC-3′ | |
| SNR79-SEN2 Northern probe (−235 to −35 of SEN2) | F | 5′-GTCAAAAATGTTTTATAGAAGCCACTCTTGC-3′ |
| R | 5′-CAGCGTCGTGTTACAATGAAACG-3′ | |
| ACT1 qRT-PCR, RT-PCR (+534 to +723 of ACT1) | F | 5′-TGTCACCAACTGGGACGATA-3′ |
| R | 5′-GGCTTGGATGGAAACGTAGA-3′ | |
| SNR47-YDR042C qRT-PCR + SNR47 ChIP primer set 3 (+225 to +323 of SNR47) | F | 5′-CGCGTCGGGATAACAAAGCGTAC-3′ |
| R | 5′-CCCTGTTATCCGCCTTTCTTCTTGG-3′ | |
| SNR32-CHS7 qRT-PCR (+211 to +314 of SNR32) | F | 5′-CTGGTTCTTAGTAACGTACTTTAGTAGC-3′ |
| R | 5′-CCTGTTGTAAACGTTCGCGTTGGC-3′ | |
| SNR85-NUP188 qRT-PCR (+219 to +369 of SNR85) | F | 5′-CGGCTCCTGCTTGTAGTTAAGG-3′ |
| R | 5′-GTGTTTCTGTTCGAATATTAAAGATGTCTC-3′ | |
| SNR47 ChIP primer set 1 (−328 to −179 of SNR47) | F | 5′-CTAGGCATCAGAACTGTCTCCGAAC-3′ |
| R | 5′-GACCGTATGGAAGACGTAGAGTGG-3′ | |
| SNR47 ChIP primer set 2 (−35 to +94 of SNR47) | F | 5′-CCTTATTATACATTCTCTTGGCGAGTGATC-3′ |
| R | 5′-GTGTTAAAAAGCTATTGTCAAAGTTTGTTTCC-3′ | |
| SNR47 ChIP primer set 4 (+175 to +334 of YDR042C) | F | 5′-CTCGAAAGTAGTTGGAGTACTGAGCG-3′ |
| R | 5′-GGGATGTGTGTAACCGATACTTCTGG-3′ | |
| SNR48 ChIP primer set 1 (−237 to −95 of SNR48) | F | 5′-GCGCGACATCATATACCTTTGTCCG-3′ |
| R | 5′-CTTGATATCGCACCCTTCTTTGCATTGCC-3′ | |
| SNR48 ChIP primer set 2 (−19 to +83 of SNR48) | F | 5′-CCTTTCATCCGTCTCGTTTATCATAATGATG-3′ |
| R | 5′-GAATGGAGAGTACTTAAACTTCACATCC-3′ | |
| SNR48 ChIP primer set 3 (+164 to +278 of SNR48) | F | 5′-GGCCTACGTAGAAGATGATGTAAAAGTAG-3′ |
| R | 5′-GTTTCCTATACGACGCGGACGAAGAG-3′ | |
| SNR48 ChIP primer set 4 (+333 to +478 of ERG25) | F | 5′-GGTCGAGGCCATCCCTATCTGGAC-3′ |
| R | 5′-GAGCCCAGTAATGCCATGTATCTTCC-3′ | |
| SNR47-YDR042C cDNA synthesis (+346 to +369 of SNR47) | 5′-GAGACCTAGTCGTTTGTTAGCTG-3′ | |
| SNR48-ERG25 cDNA synthesis (+560 to +586 of SNR48) | 5′-GAGGTTGCTGACTGTTATCGGTCATTG-3′ | |
| ACT1 cDNA synthesis (+534 to +553 of ACT1) | 5′-TGTCACCAACTGGGACGATA-3′ | |
| SNR47-YDR042C RT-PCR (+25 to +314 of SNR47) | F | 5′-CAACAACATGAATTTCTTCGTCCGAATCC-3′ |
| R | 5′-CCGCCTTTCTTCTTGGAAATTGGTAACAGG-3′ | |
| SNR48-ERG25 RT-PCR (+38 to +330 SNR48) | F | 5′-CTGGCATCTCTAATGTTAGGATGTGAAG-3′ |
| R | 5′-GGGTAACGAATGGATTGCGTAATATACCG-3′ | |
| SNR47 Northern probe (−143 to +94 of SNR47) | F | 5′-GGCTTCAGCTCCATATCTTTTG-3′ |
| R | 5′-GGAAACAAACTTTGACAATAGCTTTTTAACAC-3′ | |
| HIS3 Northern probe (+5 to +654 of HIS3) | F | 5′-CAGAGCAGAAAGCCCTAGTAAAGC-3′ |
| R | 5′-GAACACCTTTGGTGGAGGGAACATCG-3′ | |
| LEU2 Northern probe (+18 to +1068 of LEU2) | F | 5′-GATCGTCGTTTTGCCAGGTGACCACG-3′ |
| R | 5′-GGCGACAGCATCACCGACTTCGG-3′ |
a
Sequence locations are relative to transcript start sites described in the Saccharomyces Genome Database (SGD) (www.yeastgenome.org).
b
F, forward; R, reverse.