Loci with polymorphisms both in the indica-nupt comparison and among sequenced rice pt genomes
–, Absence of nucleotide(s).
Locus | Coordinates in the indica Rice Plastome | japonica Plastome | 131-kb nuptDNA on Chromosome 10 | O. nivara | indica Plastome |
---|---|---|---|---|---|
Linking japonica-nupt | |||||
1 | 64,174 | C | C | A | A |
2 | 66,410 | A | A | G | G |
3 | 62,529–62,536 | CTTGGTCT | CTTGGTCT | AGACCAAG | AGACCAAG |
4 | 65,623–65,624 | TT | TT | – | – |
5 | 5,015–5,016 | – | – | CCTTTAT | CCTTTAT |
Linking nivara-nupt | |||||
6 | 8,128 | G | A | A | G |
Linking indica-nupt | |||||
7 | 17,785–17,786 | – | 32 nucleotides | – | 32 nucleotides |
Multiple mutations | |||||
8 | 75,989–75,990 | TT | – | TT | T |
9 | 77,735–77,736 | – | G | G | TGG |
10 | 78,434–78,440 | TTTTTTT | – | TTT | TTTTTT |
11 | 80,620 | – | T | T | TT |
12 | 134,536–134,545 | A10 | A9 | A11 | A12 |