position
454
Reference
T (n=10)
N (n=10)
isotig03772
1240
T
C
T
OsFtsH2 FtsH protease
isotig03772
616
T
C
T
OsFtsH2 FtsH protease
isotig03772
1249
C
T
C
OsFtsH2 FtsH protease
isotig01775
281
C
T
C
cytochrome P450
isotig01773
281
C
T
C
cytochrome P450
isotig05374
460
C
T
C
RNA recognition motif containing
isotig00877
954
A
R (A/G)
A
OsClp3 - Putative Clp protease
isotig
Putative Function
isotig00879
895
A
R (A/G)
A
OsClp3 - Putative Clp protease
isotig03795
1184
G
R (A/G)
G
heat shock protein binding
isotig03795
826
G
R (A/G)
G
heat shock protein binding
isotig03795
878
C
M(C/A)
C
heat shock protein binding
isotig03796
1184
G
R (A/G)
G
heat shock protein binding
isotig03796
826
G
R (A/G)
G
heat shock protein binding
isotig03796
878
C
M(C/A)
C
heat shock protein binding
isotig04035
1655
C
S (C/G)
C
ketol-acid reductoisomerase, chloroplast precursor
isotig04036
1625
C
S (C/G)
C
ketol-acid reductoisomerase, chloroplast precursor
isotig06323
272
A
R (A/G)
A
GA16396-PA,
isotig06324
276
C
S (C/G)
C
GA16396-PA,
isotig08620
2482
C
S (C/G)
C
CGMC_MAPKCMGC_2.6 kinases
isotig08620
2485
T
Y (C/T)
T
isotig09180
1930
G
K (G/T)
G
CGMC_MAPKCMGC_2.6 kinases
D-3-phosphoglycerate dehydrogenase, chloroplast
precursor
isotig10716
769
C
Y (C/T)
C
transferase family protein
isotig10743
112
G
R (A/G)
G
cysteine desulfurase 1, mitochondrial precursor
isotig11038
104
A
R (A/G)
A
proteasome subunit
isotig11038
107
T
K (G/T)
T
proteasome subunit
isotig11038
659
T
W (A/T)
T
proteasome subunit
isotig11038
688
C
M (C/A)
C
proteasome subunit
isotig11163
1068
C
Y (C/T)
C
ZOS5-03 - C2H2 zinc finger protein
isotig13914
969
C
S (C/G)
C
Glycosyltransferase
isotig13949
862
A
R (A/G)
A
cyclin-dependent kinase B2-1
isotig13949
868
G
S (C/G)
G
cyclin-dependent kinase B2-1
isotig14768
242
C
M(C/A)
C
Protein
isotig15476
229
C
Y (C/T)
C
Protein
isotig16533
109
T
Y (C/T)
t
serine/threonine-protein kinase AFC2
isotig16533
40
T
Y (C/T)
t
serine/threonine-protein kinase AFC2
isotig17462
605
G
R (A/G)
G
putative uncharacterized hydrolase
Table S5: Consistent SNPs identified in isotigs across all genotypes of either N or T
phenotype (n=10), 6 homozygous (close to 100%), 30 heterozygous (close to 50%).
These are plotted in Fig. 5.