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Table 1 Molecular markers associated with G gene for seed coat colour in flax

From: Fine-mapping of a putative glutathione S-transferase (GST) gene responsible for yellow seed colour in flax (Linum usitatissimum)

Marker

Primer sequence

Scaf-fold number

Physical location on scaffold (bp)

Physical location Chr 6 (bp)

Genetic distance from G gene (cM)

Lu442

F: TCCGTGTAGAAGAAACGAGGA

R: CCGACCTCTTGCCATGATTA

25

1,636,327

 

29.4

Lu69

F: CTAAACCACACCCCCATCAC

R: AAAGTGGGGAAATTGGGCTA

352

68,959–69,164

10,960,833–10,961,358

18.6

KASP5

A1: GTTCAAGCTTCCTAAGCAGGCG

A2: GGTTCAAGCTTCCTAAGCAGGCA

C1: GGTGGTTAGATTCCTGGCCGGAA

176

258,853–258,911

15,065,122–15,065,180

11.1

KASP6

A1: ATCTGTAATCTAACGTCCGAGCAGT

A2: GATCTGTAATCTAACGTCCGAGCAAC

C1: CCATACAAAATCTCAATTCGACGCTTCTA

176

485,174–485,241

14,838,792–14,838,886

7.9

KASP20

A1: CTCCGTTTCATTATAGAATTGCTGGATTCA

A2: CTTCGTTTCATTATAGAATTGCTGGATTCT

C1: CTAGCACAAAATTAACCAGACTATGTAGA

1491

5180–5380

14,320,238–14,320,179

4.5

KASP28

A1: ACGATCGAAAGAGGAAGCTCG

A2: ACGATCGAAAGAGGAAGCTCA

C1: TACATGCATATGGCTAGCTACACTT

1491

501,848–501,870

13,793,920–13,794,025

0.6

KASP22

A1: GGTAGCTAGAGTTAGCTCATGATGA

A2: GTAGCTAGAGTTAGCTCATGATGG

C1: CTACTATCACATAGCTTTGAGCTACACTT

618

47,530–47,737

13,450,328–13,450,385

4.2

KASP21

A1: ACCCAATCAGCTCTGGATTTGTTTAA

A2: ACCCAATCAGCTCTGGATTTGTTTAT

C1: CTTGCCAGAAATCCAATACCGTCTCAA

618

538,471–538,670

12,959,816–12,959,880

7.7

HRM LG6:13,446

F: CTCTGCTTTACTACTCTTTACTCT

R: AGTTCTAATATGAAATCAGAGGGG

  

13,446,488–13,446,617

 

HRM LG6:13,593

F: TGACACTATTGTAGGATTTGTTTCT

R: CGTCGAATTAATCTCTACCTGAAT

  

13,593,300–13,593,430

 

HRM LG6:13,937

F: ACAGAGAAACATCAATCGAAATCT

R: CATTTGCTTCGGCTTATTTGC

  

13,936,796–13,936,923

 

HRM LG6:13,942

F: GAAGGTATTGGAAATGGACCATAT

R: TACAAGAAAAGCAGAGCAACTTAT

  

13,941,869–13,941,995

 

HRM LG6:14,010

F: CTTGCCCATTTCCTCCATTATTTT

R: AAGATTAGAAATCAAAGTACGGCA

  

14,009,768–14,009,893

 
  1. Scaffold number and location are based on reference genome sequence version 1.0 (available at phytozome-next.jgi.doe.gov/info/Lusitatissimum_v1_0). Physical coordinates on Chr 6 are based on pseudomolecule sequence CP027630.1 in NCBI. The putative G gene is located at 13,779,760–13,782,089 of Chr 6. Genetic distances between markers and G gene were determined using Kosambi’s mapping function
  2. F forward primer; R reverse primer; A1 allele specific primer 1 A2 allele specific primer 1 C1 common primer
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BMC Research Notes

ISSN: 1756-0500

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