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Table 1 Mal d 1 specific primer pairs for qRT-PCR analysis

From: A qRT-PCR assay for the expression of all Mal d 1 isoallergen genes

Gene

Primer name

Sequence 5′-3′

SNP consa

SNP geneb

SNP allelec

Start position

Length (bp)

Primer conc.

Ta

Tm

Slope

Mal d 1.01

qMd1.01/02F

GATTGAAGGAGATGCTTTGACA

5

-

-

258

103

100

63

80.5

−0.079

 

qMd1.01R

GTAATGACTGATGCTCTTGATGG

-

1

1

      

Mal d 1.02

qMd1.01/02F

GATTGAAGGAGATGCTTTGACA

4

-

-

258

111

100

62

81.0

−0.206

 

qMd1.02R

TTGGTGTGGTAGTGGCTGATA

1

1

-

      

Mal d 1.03A

qMd1.03AF

ATCTGAGTTCACCTCCGTCATT

1

2

-

21

96

70

63

81.0

−0.057

 

qMd1.03AR

ACTGCTTGTGGTGGAATCTTT

-

1

1

      

Mal d 1.03B

qMd1.03BF

TGTTTTCACATACGAATCCGAA

1

1

-

6

167

100

63

83.5

−0.570

 

qMd1.03BR

TGATCTTCTTAATGGTTCCTACGC

1

1

1

      

Mal d 1.03C

qMd1.03CF

CTCCGAAACAATTGAGAAAATCTG

3

-

1

276

79

100

63

80.5

−0.120

 

qMd1.03CR

GCTGGTGCTCTTGATGATGC

1

1

-

      

Mal d 1.03D

qMd1.03D/EF

ATACGAATCCGAGTTCACCTCT

1

-

-

15

156

70

62

83.0

0.005

 

qMd1.03DR

ATCTTCTTAATGGTTCCAACTCCT

1

1

-

      

Mal d 1.03E

qMd1.03D/EF

ATACGAATCCGAGTTCACCTCT

1

-

2

15

169

70

62

83.0

−0.116

 

qMd1.03ER

TTCACCGAAGTTGATCTTCTTAATA

1

1

-

      

Mal d 1.03F

qMd1.03FF

CACAGAATTGACGGGGTG

2

2

-

208

119

70

63

81.0

−0.122

 

qMd1.03FR

CCGGAAGCGACCAACTTA

2

1

1

      

Mal d 1.03G

qMd1.03GF

ATTATCAAGAGCACCAGTCACTACT

2

2

-

337

122

70

62

81.0

−0.254

 

qMd1.03GR

TCCAAGAGGTAGTTCTCAATCAA

1

-

-

      

Mal d 1.03H

qMd1.03HF

AAAATCTG CTACGAGACTAAGTTGA

3

2

-

277

173

100

61

83.5

−0.431

 

qMd1.03HR

TGGTGCTCCAAGAGGTAGTTT

1

1

-

      

Mal d 1.03I

qMd1.03IF

CCCCAAGATTGCACCACAT

-

1

-

93

228

100

61

81.5

−0.230

 

qMd1.03IR

GCCACCAACTTAGTCTCGTAACAA

2

1

-

      

Mal d 1.03J

qMd1.03JF

GCATCACCCACTACCACACA

2

1

-

347

134

70

61

82.0

−0.105

 

qMd1.03JR

CGAGCTGTAGGA GTCT TGGTT

3

3

-

      

Mal d 1.03K

qMd1.03KF

CATCAGCCACTACCACACAAA

2

1

-

348

128

100

61

81.5

−0.431

 

qMd1.03KR

TGTATGCATCCTGGTGCTCT

2

1

1

      

Mal d 1.04

qMd1.04F

GGGTATGTTAAGCAAAGGGTC A

5

2

-

196

193

100

61

80.5

−0.103

 

qMd1.04R

TGATCTCAACATCACCCTTAGC

1

1

-

      

Mal d 1.05

qMd1.05F

ATCAAACCACTAGTCACTGCCAT

4

1

1

343

124

70

63

82.5

−0.141

 

qMd1.05R

GGTTGGCCACAAGGTAGGTT

6

1

-

      

Mal d 1.06A

qMd1.06AF

CTATAGCTATAGCTTGATTGAAGGG

5

1

-

243

167

100

61

80.5

−0.203

 

qMd1.06AR

TTCCAACCTTAACATGTTCTTCT

3

-

1

      

Mal d 1.06B

qMd1.06BF

AAACCGAATACG C ATCCATT

3

3

1

20

106

100

61

81.5

−0.012

 

qMd1.06BR

ACAGTTTTGACTGCTTGTGGAG

6

-

-

      

Mal d 1.06C

qMald1.06CF

GCTCCACAAGCAGTCAAAACT

5

-

-

103

116

70

63

80.5

−0.250

 

qMald1.06CR

TCAACCTTGTGCTTCACATAACT A

3

2

-

      

Mal d 1.06D

qMd1.06DF

CCCTCCTGCTAGGTTGTA TT

2

2

-

42

100

70

61

80.5

−0.005

 

qMd1.06DR

TCCCTCGAGAATTTCAACAG

6

-

-

      

Mal d 1.07

qMd1.07F

CAACTTTGTGTACCAGTACAGTGTC

2

2

-

234

126

100

61

81.5

−0.201

 

qMd1.07R

TAGTGGCTGATGCTCTTGATAAC

2

1

-

      

Mal d 1.08

qMd1.08F

TCTTCGGTGAAGGTAGCACAA

-

2

-

173

200

100

61

81.5

−0.390

 

qMd1.08R

ACCCTTAGTGTGGTAGTGGCAT

1

2

-

      

Mal d 1.09

qMd1.09F

TTTTCACATACGAATCCGAGTC

-

1

-

8

126

100

61

84.0

−0.265

 

qMd1.09R

GGATCTCAACGCTCTTCACA

2

1

-

      

Mal d 1.10.

qMald1.10F

CAAGGCTTTC ATCCA CGAC

5

2

1

60

157

100

61

83.0

−0.158

 

qMald1.10R

GATTCTGTGCTTTACAAACCC T

4

3

-

      

Mal d 1.11A

qMald1.11AF

GGAGGATGCATCTGTCATTT G

11

1

-

343

130

100

62

79.5

−0.018

 

qMald1.11AR

CCATGAGATAGGCTTCCAA AACT

8

2

-

      

Mal d 1.11B

qMd1.11BF

CAGCACATACAAAGCCAAAGA C

8

1

-

363

125

100

61

81.0

−0.106

 

qMd1.11BR

TTTATGCGCGAGGGTGT G

6

1

-

      

Mal d 1.12

qMd1.12F

GCTTACACTTTGGTTGAAGGAGAAC

4

3

-

247

171

100

62

76.0

−0.227

 

qMd1.12R

C CTGCCAGCTTTTATTTCTTCC

5

4

-

      

Mal d 1.13A

qMd1.13AF

GTGTTGGAACCATCAAGAAGATTAG

2

2

-

149

124

100

61

78.0

−0.216

 

qMd1.13AR

ACATCTCCTTCAATCAAACTGTAAT

1

1

-

      

Mal d 1.13B

qMd1.13BF

CGAAGATAACTTTGTCTACAACCAT

2

1

-

258

137

70

61

81.5

0.003

 

qMd1.13BR

GCTCTTCCTTGATCTCAACATCT T

1

1

-

      

Mal d 1.13C

qMd1.13CF

GAATTCGCCTCAGTCTCCA

5

1

-

25

186

70

61

82.0

0.087

 

qMd1.13CR

GTGCTTCACATAGCTGTATTCACTT

3

1

-

      

Mal d 1.13D

qMd1.13DF

TGTTGGAACCATCAAGAAGATAAGT

2

1

-

150

124

100

61

78.5

−0.163

 

qMd1.13DR

GACATCTCCTTCAATCAAACTGTAG

2

1

-

      

Mal d 1.14

qMd1.14F

GGTGAAGGGAGTGAATACAACTATA

6

1

-

178

185

100

61

79.0

−0.470

 

qMd1.14R

TGGTAATGGCTA ATGTTCTTGATAC

2

2

2

      
  1. aSNPs to the consensus sequence showed in bold; bgene-differentiating SNPs showed in italics and callele-differentiating SNPs showed by underlining. The last column contains the slopes of the curves obtained by plotting log input vs ΔCt (Ct Mal d 1 gene - Ct actin). The values between −0.1 and 0.1 are underlined.
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BMC Plant Biology

ISSN: 1471-2229

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