Table 4 Nucleotide positions of seven high-quality SNPs with respect to the ATG start codon in the Sub1A gene and SNP haplotype frequencies in 96 rice cultivars from which the gene could be amplified and sequenced.

From: Allelic sequence variation in the Sub1A, Sub1B and Sub1C genes among diverse rice cultivars and its association with submergence tolerance

Haplotype

Exon

Intron

Freq-uency

SNP1

SNP2

SNP3

SNP4

SNP5

SNP6

SNP7

556

678

878

1121

1127

1277

1407

H1

C

G

G

G

C

A

G

3

H2

C

G

C

G

C

A

G

28

H3

T

G

C

G

C

A

G

9

H4

T

A

C

G

T

A

G

1

H5

T

A

C

G

C

A

G

4

H6

T

A

C

G

C

G

G

1

H7

T

A

C

G

C

G

A

1

H8 (Ref.)

T

A

C

C

C

G

A

49

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