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Table 1 Comparison of SNP among mitochondrial sequences reported by Notsu et al. ( 2002 ), Tian et al. ( 2006 ) and the current study

From: Re-sequencing of mitochondrial genes in a standard rice cultivar Nipponbare

Gene

CDS Length (bp)

Position of SNP

Position of SNP in BA000029.3

Notsu et al. (2002)

Tian et al. (2006)

Current study

BA000029.3

DQ167400.1

 
    

genomic seq

genomic seq

genomic seq

cDNA seq

ccmFn

1,785

185

323,671

gGt (G)

gCt (A)

gCt (A)

gCt (A)

  

677

323,179

gCc (A)

gGc (G)

gGc (G)

gGc (G)

mat-r

2,037

1,809

316,040

cgT (R)

cgA (R)

cgA (R)

cgA (R)

  

1,812

316,037

acC (T)

acG (T)

acG (T)

acG (T)

nad4

1,488

759

200,397

gcT (A)

gcA (A)

gcA (A)

gcA (A)

nad6

618

21

60,116

tcT (S)

tcG (S)

tcG (S)

tcG (S)

  

97

60,040

Atc (I)

Gtc (V)

Gtc (V)

Gtc (V)

  

166

59,971

Att (I)

Gtt (V)

Gtt (V)

Gtt (V)

  

398

59,739

aAt (N)

aGt (S)

aGt (S)

aGt (S)

  

414

59,723

gaC (D)

gaA (E)

gaA (E)

gaA (E)

  

467

59,670

aCt (T)

aGt (S)

aGt (S)

aGt (S)

  

474

59,663

atC (I)

atT (I)

atT (I)

atT (I)

  

476

59,661

tCa (S)

tTa (L)

tTa (L)

tTa (L)

  

562

59,575

Ctg (L)

Ttg (L)

Ttg (L)

Ttg (L)

  

567

59,570

gaC (D)

gaT (D)

gaT (D)

gaT (D)

  

607

59,530

Tcg (S)

Acg (T)

Acg (T)

Acg (T)

rpl2

1,509

1,249

297,421

Ttc (F)

Ctc (L)

Ctc (L)

Ctc (L)

rrn18

1,695

1,566

282,896

C

T

T

T

rrn26

3,542

1,980

382,078

G

C

C

C

  1. The position of the SNP is shown relative to the start site of each protein-coding gene or mature rRNA. Each SNP is capitalized in the corresponding codon, with the amino acid change shown in parentheses.