Skip to main content

Table 3 Characteristics of EST-SSRs and efficiency of marker development in cabbage

From: Transcriptome sequencing of two parental lines of cabbage (Brassica oleracea L. var. capitata L.) and construction of an EST-based genetic map

Motif No. of EST-SSRs (%) No. of designed primer pairs No. of primer pairs amplifying product (%)a No. of polymorphic primers (%)b
Dinucleotide 750 (31.19) 223 183 (82.06) 26 (14.21)
  AC/CA 73 (3.04) 29 26 (89.66) 4 (15.38)
  AG/GA 543 (22.58) 162 130 (80.25) 18 (13.85)
  AT/TA 134 (5.57) 32 27 (84.38) 4 (14.81)
Trinucleotide 1,591 (66.15) 645 589 (91.32) 78 (13.24)
  AAC/ACA/CAA 151 (6.28) 64 57 (89.06) 9 (15.79)
  AAG/AGA/GAA 484 (20.12) 195 171 (87.69) 20 (11.70)
  AAT/ATA/TAA 26 (1.08) 11 10 (90.91) 2 (20)
  ACC/CAC/CCA 143 (5.95) 60 57 (95) 10 (17.54)
  ACG/CGA/GAC 25 (1.04) 7 7 (100) -
  ACT/CTA/TAC 39 (1.62) 19 16 (84.21) 2 (12.5)
  AGC/GCA/CAG 135 (5.61) 52 50 (96.15) 5 (10)
  AGG/GGA/GAG 228 (9.48) 103 98 (95.15) 15 (15.31)
  ATC/TCA/CAT 299 (12.43) 111 101 (90.99) 13 (12.87)
  CCG/CGC/GCC 61 (2.54) 23 22 (95.65) 2 (9.1)
Tetranucleotide 24 (1) 15 13 (86.67) 2 (15.38)
Pentanucleotide 12 (0.5) 4 3 (75) 1 (33.33)
Hexanucleotide 28 (1.16) 11 10 (90.91) 2 (20)
Compound formation 92 39 31 (79.49) 7 (22.58)
Total 2405 (100) 937 829 (88.47) 116 (13.99)
  1. aPercentage of designed primer pairs successfully amplifying EST-SSRs.
  2. bOf the primer pairs that amplified product, percentage showing polymorphism.