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Table 4 Polymorphism character and position in reference sequence.

From: Polymorphisms in monolignol biosynthetic genes are associated with biomass yield and agronomic traits in European maize (Zea mays L.)

Gene

Position

Polymorphism

Position in reference sequence

PAL

947

Intron SNP

TTTAGAGACGATCGCAATCCA(C/T)

 

1652,1655

Intron SNP

CCTTGTGCGCTGGCTCCC(T/C)TT(C/T)

4CL2

192

synonymous SNP

TACTGCTTCGGGAAGATGGG(T/C)

 

217

Val to Ile SNP

TGGCGGAGCGGGCGTGCCTG(G/A)

COMT

2358

3'UTR indel

CGCCGTCGTCGTCTTCTTCT(+/-)

F5H

65

Leu to Pro SNP

ACGCGCGACAATATCAAGGC(T/C)

4CL1

454

Exon indel

TTCGTCGGCAAGGTGCGGGGG(+/-)

 

810s

Exon indel

GCTGTGCGGGATGCGCGCCGG(+/-)

CCoAOMT2

75

Exon Indel

CAGGCCAACGGCAACGGCAA(+/-)

 

144

synonymous SNP

CTGCTCAAGAGCGACGACCT(C/G)

 

406

Intron SNP

ACCGAGATCTGAGAACGAAC(A/G)

 

663

Intron indel

CCTAGGATCTTAACCACCCC(+/-)

  1. Polymorphism character and position in reference sequence. (N/N): SNP substitution; (+/-): indel; s: singleton; M73235, AY323238, AY279014, AX204867, AX204868, and AX204869 were used as reference sequences for COMT, CCoAOMT1, CCoAOMT2, 4CL1, 4CL2, and F5H respectively. The reference sequences for PAL are the conserved sequences before each polymorphism in our alignment.