Molecular and phylogenetic characterization of the homoeologous EPSP Synthase genes of allohexaploid wheat, Triticum aestivum (L.)

Table 1 Primer sequences and primer positions based on TaEPSPS-7A1

^aPrimer No.	Primer name	^bSequence (5' to 3')	^cGenome specificity	Primer position
Forward
-	T7	TAATACGACTCACTATAGGG	-	-
1	F1.2	GCAATGGCGATGGCTG	7A	5'-UTR/exon 1
2	Int1_F2-D	AGCAGCATGTCCTGTTATCTTAT	7D	intron 1
3	Int1_F2-A/B	CAGCATGTCCTGTTCTCTTG	4A	intron 1
4	F2	AGGATGTCCACTACATGCTT	7A/7D	exon 2
5	F3	AGGATGTCCACTACATGCTC	7D/4A/7A	exon 2
6	F2-AB	GCAACTTATGTGCTTGATGGC	7A	exon 2/exon 3
7	InvF1-AB/D	GAGCGACCTATTGGTGACTTAG	7D/7A/4A	exon 3
8	InvF3-AB/D	CCACCTGTCCGTATCAACG	7A/7D/4A	exon 3
9	Int3_F1-AB	ATGTAATGCAACCTTAGACCGC	7A	intron 3
10	Int3_F1-A/B	CGATCAATGCGACCTTACACAAT	4A	intron 3
11	Int3_F1-D	GCAACGCGACCTTACACCGT	7D	intron 3
12	F19-AB	GGACAGATTCTACATTAAGGGAGGAC	7D/7A/4A	exon 4
13	Ex6_B-F	TACTTGAGATGATGGGAGCG	4A	exon 6
14	F13-AB	ATTTGGAAGGAAACACCTAAAA	7A/4A	exon 6
15	F14-D	GAAGGAAACACTTAAAGGCTGTC	7D	exon 6
16	F19-D	GTCCTGACACTTGTTCATTC	7D/4A	intron 6
17	F18-AB	GAACATCACGGCGATCGAC	7A/4A	exon 8
18	F18-D	GAACGTCACGGCGATCGAT	7D	exon 8
-	TaSEC_F	AGCAATTCGCACAATTATTACAAG	-	-
Reverse
-	SP6	TATTTAGGTGACACTATAG	-	-
19	InvR2-AB-D	CAACAGGTTATCCACCACC	common	exon 2
20	InvR1-AB-D	GCATTGCAGTTCCAGCATTAC	common	exon 2
21	R1-AB	TTGTGCCAAGGAAACAATCGA	7A	exon 3
22	Ex4_R2	GCTCCGCAGTCACACCAAAAT	7A	exon 4
23	R2	TCAGAATGCTCCGCAGTCACA	7A/7D	exon 4
24	R3	TCAGAATGCGCCGCAGTCACG	7D/4A	exon 4
25	Ex4_R3	CTTGTATTTTTGTCCTCCCTTG	4A	exon 4
26	R19-AB	CCAGAATAATGGATGGCTCG	7A	intron 4
27	Ex6_B-R1	GCAACAACGGCAAGAGTCATT	4A	exon 6
28	R18-D	GACGCACGTGCTAGATTGCTTG	7D	intron 6
29	R12-AB	CGGATCGCGACCATTCTTTCA	7A	exon 7
30	R16-AB	TCTTTCGGGTGCATCCAGGG	7A	exon 8
31	R16-D	TCTTTCTGGTGCACCCCGGA	7D	exon 8
32	R1	CTAGTTCTTGACGAAGGTGCTTAG	common	exon 8
-	TaSEC_R	CTCACAGAAGACCTGGAAGC	-	-

^aPrimers are numbered in order based on location in TaEPSPS-7A1 as shown in Additional file 4
^bThe start codon ATG and stop codon CTA are underlined
^cBold letters indicate genome-specific primers

ISSN: 1471-2164