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. 2012 Oct 26;111(1):1–19. doi: 10.1093/aob/mcs227

Table 2.

Polymorphisms of nucleotide sequences of genes for all samples analysed

Gene CS TS GS SC SNC SNPc Freq. SNPnc Freq. πnonsyn/πsyn indelc Freq. indelnc Freq.
CHI 652 721 721 206 446 11 53·40 68 152·47 1·38 0 0 8 17·94
CHS 565 659 659 574 0 20 35·40 – – 0·06 0 0 – –
FLS 473 763 763 419 54 41 97·85 6 111·11 0·12 0 0 3 55·56
F3'H 783 1000 1400 569 214 40 70·30 20 93·46 0·55 0 0 3 14·02
DFR 421 1017 1650 171 250 7 40·94 26 104·00 0·25 0 0 3 12·00
EMA 428 166 450 131 297 7 53·44 27 90·91 2·27 1 7·63 4 13·47
MDH 712 1209 1250 712 0 28 39·33 – – 1·06 0 0 – –
ACO 695 1196 2000 250 445 5 20·00 39 87·64 0·02 0 0 2 4·49
TRPA 795 987 1300 657 138 40 60·88 15 108·70 0·43 0 0 1 7·25
INVA 908 679 1100 515 393 36 69·90 38 96·69 0·23 0 0 1 2·54
PEPC 694 1201 2000 61 633 2 32·79 51 80·57 0·00 0 0 4 6·32
PKF 775 807 1650 406 369 16 39·41 31 84·01 0·88 0 0 3 8·13
DXS 722 935 1500 327 395 13 39·76 37 93·67 0·29 0 0 3 7·59
PSY 606 727 2100 97 509 5 51·55 40 78·59 0·39 0 0 2 3·93
HYB 680 787 1600 379 301 19 50·13 27 89·70 0·91 1 2·638 2 6·64
LCY2 738 850 850 738 0 65 88·08 – – 0·27 5 6·77 – –
LCYB 941 1206 1500 941 0 37 39·32 – – 0·13 0 0 – –
NCED3 560 650 650 560 0 22 39·29 – – 0·39 0 0 – –
AOC 675 801 800 675 0 37 54·81 – – 0·12 0 0 – –
MRP4 774 782 900 363 411 14 38·57 24 58·39 0·29 0 0 1 2·43
CCC1 762 805 850 762 0 33 43·31 – – 0·06 0 0 – –
HKT1 238 1003 1200 116 122 10 86·21 9 73·77 0·17 0 0 1 8·20
LAPX 282 321 400 145 137 11 75·86 8 58·39 0·19 0 0 – –
NADK2 339 787 1200 65 274 3 46·15 25 91·24 2·12 0 0 1 3·65
PIP1 190 346 500 103 87 5 48·54 21 241·38 0·01 0 0 0 0·00
SOS1 495 579 1000 358 137 22 61·45 12 87·59 0·18 0 0 1 7·30
TSC 335 505 800 136 199 7 51·47 17 85·43 0·58 0 0 0 0·00
Total 16238 10427 5811 556 52·89 541 98·39 7 0·66 43 7·58

CS, cleaned sequence (bp); TS, theoretical size of EST (bp); GS, genomic size (bp); SC, sequence coding region (bp); SNC, sequence non-coding region (bp); SNPc, SNPs in the coding region; Freq, SNP frequency per kb; SNPnc, SNPs in the non-coding region; πnonsyn/πsyn, average non-synonymous/synonymous substitution rate; indelc, indels in coding region; indelnc, indels in non-coding region. See Table 1 for gene abbreviations.