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Table 2 A subset of Eutrema polymorphisms that differentiate the two accessions

From: RNA-Seq effectively monitors gene expression in Eutrema salsugineum plants growing in an extreme natural habitat and in controlled growth cabinet conditions

Position of polymorphism

JGIEutrema locus identifier

Base change(s) Yukon: Shandong

Coverage Yukon: Shandong

Scaffold 1: 4,440,114

Thhalv10025531m

A:G

90:40

Scaffold 2: 6,032,225

Thhalv10014327m

A:G

167:93

Scaffold 2: 8,916,704

Thhalv10013555m

A:G

1180:335

Scaffold 3: 5,423,444

Thhalv10028955m

A:G

48:25

Scaffold 6: 2,15 9,339

Thhalv10003756m

A:G

48:26

Scaffold 6: 5,412,324

Thhalv10005526m

A:G

61:44

Scaffold 13: 7,815,985

Thhalv10021402m

A:G

134:89

Scaffold 13: 6,172,584

Thhalv10020197m

A:G

768:79

Scaffold 13: 5,369,287

Thhalv10020602m

A:G

72:50

Scaffold 16: 1,662,648

Thhalv10010065m

A:G

48:31

Scaffold 16: 1,475,722

Thhalv10010527m

A:G

70:31

Scaffold 19: 2,648,494

Thhalv10005990m

A:G

74:39

Scaffold 19: 944,324

Thhalv10005892m

A:G

1990:647

Scaffold 1: 7,216,530

Thhalv10024615m

T:A

67:107

Scaffold 10: 6, 554,603

Thhalv10016361m

T:A

100:51

Scaffold 13: 8,863,896

Thhalv10020900m

T:A

181:24

Scaffold 14: 4 221,543

Thhalv10027724m

T:A

62:52

Scaffold 15: 544,264

Thhalv10000015m

T:A

60:43

Scaffold 22: 987,812

Thhalv10001310m

T:A

63:46

Scaffold 5: 1,539,747

Thhalv10007601m

T:A

44:31

Scaffold 8: 1,169,845

Thhalv10023594m

T:A

53:21

Scaffold 1: 6,103,206

Thhalv10026365m

T:A

254:130

Scaffold 10: 8,782,193

Thhalv10017224m

T:A

58:34

Scaffold 10: 11,862,224

Thhalv10017066m

T:A

101:65

Scaffold 13: 3,668,845

Thhalv10021205m

T:A

94:97

Scaffold 16: 1, 960,564

not annotated

T:A

167:22

Scaffold 2: 4,381,656

Thhalv10013572m

T:A

135:125

Scaffold 2: 4,455,202

Thhalv10012443m

T:A

1006:198

Scaffold 2: 9,054,220

Thhalv10013543m

T:A

74:23

Scaffold 5: 6,470,821

Thhalv10009562m

T:A

22:82

Scaffold 5: 9,933,756

Thhalv10007762m

T:A

248:532

Scaffold 5: 11,358,486

Thhalv10008740m

T:A

51:48

Scaffold 1: 3,499,240 *

Thhalv10024883m

T:A

118:39

Scaffold 19: 1,451,367

Thhalv10006024m

TAA: -

6:23

Scaffold 20: 897,166

Thhalv10000834m

- :A

14:3

Scaffold 10: 2,975,499

Thhalv10016162m

- :TGAGTCTAG

41:35

Scaffold 13: 5,622,589

Thhalv10021362m

AA: -

32:22

Scaffold 16: 4,729,391

Thhalv10010831m

- :CAGTA

216:45

Scaffold 7: 1,061,288

Thhalv10011242m

- :GTGAATCTG

172:116

Scaffold 9: 674,593

not annotated

- :T

133:89

  1. High Resolution Melting (HRM) was conducted on genomic DNA purified from single, cabinet-grown Yukon and Shandong plants. Position of the polymorphism on the JGI scaffold is indicated as well as its association with a gene locus in the JGI Eutrema genome release. Only one computationally predicted SNP (indicated by *) could not be confirmed by HRM. Coverage refers to the number of uniquely mapped sequencing reads aligning to a polymorphism-associated locus in each accession.