TABLE 1

Primers used in the survey of four-cutter variation in the Delta region

NamePrimer sequenceAnnealSize (kb)
Dl-5′-F5′-GGACAAGCGGTTGGAATTCCAGGAATCGCC645.6
Dl-5′-R5′-CTGCACGATGACTGTGAAGCAAATGAATGCTG
Dl-In1-F5′-TAACAGAATTCATTTGCTTCACAGTCATCGTGC645.8
Dl-Inl-R5′-GTGAAGCCCTTGTTCTGGAAGCGCTGG
Dl-In2-F5′-CTACGGGGACGTGATCACGC59a3.9
Dl-In2-R5′-CGCATTGCCGCTATTGTTCG
Dl-In3-F5′-GTCGAGGCCTGGCATGATACG594.2
Dl-In3-R5′-CCATCCGGTCAAACAGATAATTTCG
Dl-In4-F5′-GATCTCAACTACTACGGATCCGGCTGTGCC613.3
Dl-In4-R5′-TTGGGTTTGTCGCAATGTCCATGTTCACAGCC
Dl-In5-F5′-CATTGCGACAAACCCAATCAATGC58b2.7
Dl-In5-R5′-GTTTATGCATGAATTCGGACTGC
Dl-3′-F5′-TGGGTTGGGTTCAAAATGTGAGAGAGACGCCC612.1
Dl-3′-R5′-CAACACCAACAATAACAGTTAAAAGACAGCGG
  • All primers with “In” in their name are located in Dl exons and amplify the intron they flank. Dl-5′-R and Dl-3′-F are located in Dl exons, and the positions of Dl-5′-F and Dl-3′-R can be inferred from the size of the amplicon. Adjacent amplicons do not necessarily overlap, thus the entire coding region was not surveyed. PCR conditions are described in text, with exceptions noted below.

  • a 0.8 μl of 25 mM Mg(0Ac)2 added per 50 μl reaction.

  • b 1.5 μl of 25 mM Mg(0Ac)2 added per 50 μl reaction.