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Table 1
Yeast controls used in this study with corresponding qPCR primers
Yeast intronic/intergenic control transcript	Vector name ATCC number GenBank Accession	Insert size (bp)	Copies spiked/5 μg total RNA	Forward/reverse qPCR oligo sequence	Optimal concentration	Amplicon		Intron spanned?

						Size	T_m

YPL075W_16_412249_415357_INTRON_9_759	pNIAysic-1 MBA-201 DQ023287	630	1.00E+04	5'-CCTACTTGATAAAGCCACATACCTCTACCTCTTCTATTAG-3' 5'-TTGCGTTACTCTATTAATAATCCATAGTTGGAAC-3'	300 nM 50 nM	134 bp	73.4°C	No
YPL081W_16_404945_406039_INTRON_8_508	pNIAysic-2 MBA-202 DQ023288	400	1.00E+05	5'-CGACACTTCAGGTAAAGCGTTCCGAAGTAATTCAAC-3' 5'-TCTCAAACCTAACACATTTCTGTATTAAGCCTAG-3'	300 nM 300 nM	129 bp	75.8°C	No
NOT:D_1493031-1494574_553-1543	pNIAysic-3 MBA-203 DQ023289	997	1.00E+06	5'-TTACCATTCACTCCATGATGTCGTACCTGTTACACTAC-3' 5'-CGGTACATGTTATTACCAGAAAAAGATGTATATCC-3'	300 nM 300 nM	145 bp	79.8°C	No
YER133W_5_432491_433954_INTRON_178_702	pNIAysic-4 MBA-204 DQ023290	428	1.00E+07	5'-GTCGAGATAGCCGAGATAATGTGTGTG-3' 5'-GCAAGGGGGATTTTTCTGAATATGG-3'	300 nM 300 nM	136 bp	76.5°C	No
YNL162W_14_331319_332151_INTRON_5_516	pNIAysic-5 MBA-205 DQ023291	367	1.00E+08	5'-TGCAGCAACAGAGTATCATATGCATGG-3' 5'-CACTGCACAATCTGAAGATAGCGAGG-3'	300 nM 300 nM	145 bp	77.7°C	No
YNL302C_14_62942_61957_INTRON_21_571	pNIAysic-6 MBA-206 DQ023292	416	1.00E+09	5'-ATTTCCCATTACCTGATAAATTGAAGTTCATC-3' 5'-TTTGTATAGTTGGCTCAAAATATTCTCTCCAC-3'	900 nM 300 nM	100 bp	73.8°C	No
YBL087C_2_60732_59815_INTRON_43_546	pNIAysic-7 MBA-207 DQ023293	436	1.00E+010	5'-GCAGATGAAGTGATACCTGTCAATATTCATG-3' 5'-AGAAATAACATTTCGATGGTTATCCATTAGTATG-3'	300 nM 300 nM	128 bp	76.2°C	No

Carter et al. Genome Biology 2005 6:R61 doi:10.1186/gb-2005-6-7-r61

Table 1