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Table 1 Yeast controls used in this study with corresponding qPCR primers

From: Transcript copy number estimation using a mouse whole-genome oligonucleotide microarray

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

Tm

 

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