Leiden Muscular Dystrophy data pages^©

PCR and sequence analysis of DMD gene exons

(last modified March 19, 2006)

This page contains a list of primers that can be used to amplify and sequence every exon of the DMD-gene. The list was kindly provided by Bert bakker and Sander Kneppers (Human & Clinical Genetics, Leiden University Medical Center, LEIDEN, Nederland), based on primers published previously on these pages (see "PCR of DMD gene exons"). An overview of all primers used to amplify DMD sequences can be found at "PCR of sequences in/around the DMD-gene".

Table of primer sequences

Exon	Name	Forward / reverse primer	Length (in bp)	Annealing T (in ^oC)
Dp427m promoter region (-674 - -149)	Hamed et al. 2006	GAAGATCTAGAacagtggatacataacaaatgcatg / ttctccgaaggtaattgcctcccCAGATCTGAGTCC	535
1	DMDEX01-F4/R4	[M13f]-GCAGGTCCTGGAATTTGA / [M13r]-caaactaaacgttatgccaca	405	55
2	DMDEX02-F5/R2	[M13f]-cactaacacatcataatgg / [M13r]-gatacacaggtacatagtc	269	52
3	DMDEX03-F4/R4	[M13f]-tcatccatcatcttcggcagattaa / [M13r]-caggcggtagagtatgccaaatgaaaatca	444	55
4	DMDEX04-F3/R2	[M13f]-ttgtcggtctctctgctggtcagtg / [M13r]-ccaaagccctcactcaaac	233	55
5	DMDEX05-F3/R3	[M13f]-caactaggcatttggtctc / [M13r]-ttgtttcacacgtcaaggg	261	55
6	DMDEX06-F6/R6	[M13f]-tggttcttgctcaaggaatg / [M13r]-tggggaaaaatatgtcatcag	335	55
7	DMDEX07-F3/R3	[M13f]-ctatgggcattggttgtc / [M13r]-aaaagcagtggtagtccag	296	55
8	DMDEX08-F5/R5	[M13f]-tcgtcttcctttaactttg / [M13r]-tcttgaatagtagctgtcc	343	55
9	DMDEX09-F4/R4	[M13f]-tctatccactcccccaaacc / [M13r]-aacaaaccagctcttcac	318	55
10	DMDEX10-F1/R1	CGACGT-[M13f]-ggaacaatctgcaaagac / [M13r]-aaaggatgacttgccattataac	350	55
11	DMDEX11-F4/R3	[M13f]-caaataaaactcaaaaccacacc / [M13r]-cttccaaaacttgttagtcttc	337	55
12	DMDEX12-F2/R2	[M13f]-ctttcaaagaggtcataatagg / [M13r]-catctgtgttactgtgtatagg	305	55
13	DMDEX13-F3/R3	[M13f]-gcaaatcatttcaacacac / [M13r]-tctttaaatcacagcacttc	387	55
14+15	DMDEX14-F2/R2	[M13f]-tggcaaattattcatgccatt / [M13r]-tgatccaagcaaaaataaacatt	548	52
16	DMDEX16-F3/R3	[M13f]-atgcaacccaggcttattc / [M13r]-ctgtagcatgataattggtatcac	286	55
17	DMDEX17-F6/R4	[M13f]-ttttcctttgccactccaag / [M13r]-caccaccaacaaaactgctg	362	55
18	DMDEX18-F1/R1	CGACGT-[M13f]-tgtcaggcaggagtctcagat / [M13r]-cggagtttacaagcagcaca	339	55
19	DMDEX19-F4/R4	[M13f]-gatggcaaaagtgttgagaaaaagtc / [M13r]-ttctaccacatcccattttcttcca	495	55
20	DMDEX20-F2/R2	[M13f]-tggctttcagatcatttctttc / [M13r]-aaatacctattgattatgctcc	393	55
21	DMDEX21-F3/R3	[M13f]-gcaaaatgtaatgtatgcaaag / [M13r]-atgttagtaccttctggatttc	355	55
22	DMDEX22-F2/R2	[M13f]-aggaaaacatggcaaagtgtg / [M13r]-tgctcaatgggcaaactacc	370	55
23	DMDEX23-F3/R3	[M13f]-tcatctactttgtttacatgtttgaa / [M13r]-acagtgtatcgttagggaaaaa	433	52
24	DMDEX24-F4/R3	[M13f]-ttgggcctgtgtttagacata / [M13r]-aaatccaccccagctgtaaaa	327	55
25	DMDEX25-F2/R2	[M13f]-tgtggcagtaatttttttcag / [M13r]-aggaaatcttagttaagtacg	296	55
26	DMDEX26-F1/R1	CGACGT-[M13f]-taataatgtttcatcactgtc / [M13r]-tgttgcatttctttctttttc	335	55
27	DMDEX27-F2/R3	[M13f]-tgggatgttgtgagaaagaa / [M13r]-tgaccatgtattgacatataattga	365	55
28	DMDEX28-F2/R2	[M13f]-gaagttttaataatgaaatggcaaaa / [M13r]-gtacctcttttaatactgcatat	311	55
29	DMDEX29-F4/R4	[M13f]-ccaatgtatttagaaaaaaaaggag / [M13r]-gcaaattagattaaagagattttcac	279	52
30	DMDEX30-F4/R3	[M13f]-tacagaaaagctatcaagag / [M13r]-aaaaacaaaagaatggaagc	297	55
31	DMDEX31-F2/R2	[M13f]-atggtagaggtggttgagga / [M13r]-tataatgcccaacgaaaaca	296	52
32	DMDEX32-F2/R2	[M13f]-cagttattgtttgaaaggcaaa / [M13r]-cttcttaatgaggaaagtcaagg	322	55
33	DMDEX33-F1/R1	CGACGT-[M13f]-tggaatagcaattaaggg / [M13r]-gctaagactctaatcatac	393	55
34	DMDEX34-F3/R3	[M13f]-cagaaatataaaagttccaaataagtg / [M13r]-catgttaatacttccttacaaaatc	374	55
35	DMDEX35-F2/R3	[M13f]-ccgtttcataagcattaaatc / [M13r]-agcttctagccttttctc	307	55
36	DMDEX36-F1/R1	CGACGT-[M13f]-tgtctaaccaataatgccatg / [M13r]-ctggtgtacaatttggaca	257	55
37	DMDEX37-F1/R1	CGACGT-[M13f]-ctttctcactcttctcgctcac / [M13r]-ttcgcaagagaccatttagcac	377	55
38	DMDEX38-F2/R2	[M13f]-ggtttatgtttcttataaaaagtaa / [M13r]-atttatttccactcctagtt	267	52
39	DMDEX39-F1/R1	CGACGT-[M13f]-taaaaaccaaaatgaagactg / [M13r]-ttaaataagcatacacattgaac	365	55
40	DMDEX40-F2/R2	[M13f]-tacaaaaagatgagggac / [M13r]-aatagaaacaagaacatcaac	387	55
41	DMDEX41-F2/R2	[M13f]-gttagctaactgccctgggccctgtattg / [M13r]-tagagtagtagttgcaaacacatacgtgg	311	55
42	DMDEX42-F3/R3	[M13f]-atggaggaggtttcactgtt / [M13r]-ccatgtgaaagtcaaaatgc	408	55
43	DMDEX43-F4/R4	[M13f]-tgcaacaccatttgctacc / [M13r]-atcatttctgcaagtatcaag	357	55
44	DMDEX44-F5/R2	[M13f]-gttacttgaaactaaactctgcaaatg / [M13r]-acaacaacagtcaaaagtaatttccatc	444	55
45	DMDEX45-F5/R4	[M13f]-ttctttgccagtacaactgc / [M13r]-tctgctaaaatgttttcattcc	357	55
46	DMDEX46-F4/R4	[M13f]-ccagtttgcattaacaaatagtttgag / [M13r]-agggttaagaagaaataaagttgtgag	409	55
47	DMDEX47-F4/R4	[M13f]-tgatagactaatcaatagaagcaaagac / [M13r]-aacaaaacaaaacaacaatccacatacc	399	55
48	DMDEX48-F4/R4	[M13f]-ttgaatacattggttaaatcccaacatg / [M13r]-cctgaataaagtcttccttaccacac	543	55
49	DMDEX49-F4/R4	[M13f]-gtgcccttatgtaccaggcagaaattg / [M13r]-gcaatgactcgttaatagccttaagatc	475	55
50	DMDEX50-F3/R2	[M13f]-caccaaatggattaagatgttcatgaat / [M13r]-tctctctcacccagtcatcacttcatag	307	55
51	DMDEX51-F3/R3	[M13f]-gaaattggctctttagcttgtgtttc / [M13r]-ggagagtaaagtgattggtggaaaatc	424	55
52	DMDEX52-F4/R4	[M13f]-gtgttttggctggtctcaca / [M13r]-catgcatcttgctttgtgtgt	298	55
53	DMDEX53-F3/R3	[M13f]-tcctccagactagcatttac / [M13r]-ttagcctgggtgacagtg	485	55
54	DMDEX54-F2/R2	CGACGT-[M13f]-gtattctgacctgaggattc / [M13r]-catggtccatccagtttc	378	55
55	DMDEX55-F3/R7	[M13f]-aatttagttcctccatctttctct / [M13r]-aaatacatcaggctgtataaaagc	445	55
56	DMDEX56-F2/R2	[M13f]-attctgcacatattcttcttcctgc / [M13r]-ggatgatttacgtagacatgtgag	353	55
57	DMDEX57-F2/R2	[M13f]-caatggaattgttagaatcatca / [M13r]-cactggattactatgtgcttaacat	320	55
58	DMDEX58-F4/R4	[M13f]-ttttgagaagaatgccacaagcc / [M13r]-aaaatatgagagctatccagaccc	315	55
59	DMDEX59-F6/R6	[M13f]-aaagaatgtggcctaaaacc / [M13r]-ttgtgggaagataacactgc	433	55
60	DMDEX60-F3/R3	[M13f]-taaatattctcatcttccaatttgc / [M13r]-ttactgtaacaaaggacaacaatg	267	55
61	DMDEX61-F3/R3	[M13f]-cattgttttaattgttcctcatt / [M13r]-ttcaactcttaattcttttgttttt	270	55
62	DMDEX62-F4/R4	[M13f]-taatgttgtctttcctgtttgcg / [M13r]-atacaggttagtcacaataaatgc	221	55
63	DMDEX63-F1/R1	[M13f]-tactcatggtaaatgctaaagtc / [M13r]-tagcaaagtaactttcacactgc	229	55
64	DMDEX64-F2/R2	[M13f]-ttctgatggaataacaaatgct / [M13r]-cattctaggcaaactctaggc	322	55
65	DMDEX65-F2/R2	[M13f]-tatgagagagtcctagctagg / [M13r]-taagcctcctgtgacagagc	383	55
66	DMDEX66-F4/R3	[M13f]-gtctagtaattgttttctgctttg / [M13r]-ataagaacagtctgtcatttccc	246	55
67	DMDEX67-F2/R2	[M13f]-gaagtaaccccactactgtggaa / [M13r]-aaacgaagctctgtgggttt	405	55
68	DMDEX68-F1/R1	[M13f]-taatcgaactgatatacacctcc / [M13r]-actaacagcaactggcacagg	387	55
69	DMDEX69-F3/R3	[M13f]-gaacgtggtagaaggtttattaaa / [M13r]-ctaactctcacgtcaggctg	267	55
70	DMDEX70-F3/R3	[M13f]-tggtcattagttttgaaatcatc / [M13r]-catcaaacaagagtgtgttctg	273	55
71	DMDEX71-F3/R3	[M13f]-ggctgagaaagcgtgtgtct / [M13r]-gagcgaatgtgttggtggta	174	55
72	DMDEX72-F1/R1	[M13f]-gatggtatctgtgactaatcac / [M13r]-atttcaatcaatatttgcctggc	181	55
73	DMDEX73-F2/R2	[M13f]-acgtcacataagttttaatgagc / [M13r]-atgctaattcctatatcctgtgc	238	55
74	DMDEX74-F1/R1	[M13f]-ataagggggggaaaaaac / [M13r]-tgcaagtgtatgcactctg	290	52
75	DMDEX75-F1/R1	[M13f]-tcttttttacttttttgatgc / [M13r]-agtgctctctgaggtttag	380	55
76	DMDEX76-F4/R3	[M13f]-gggtcaaaatttatgagtcctg / [M13r]-ttcatgtccctgtaatacgact	330	55
77	DMDEX77-F1/R1	[M13f]-taatcatggccctttaatatctg / [M13r]-gatactgcgtgttggcttcc	306	55
78	DMDEX78-F2/R3	[M13f]-ttctgatatctctgcctcttcc / [M13r]-catgagctgcaagtggagagg	267	55
79	DMDEX79-F2/R2	[M13f]-agagtgatgctatctatctgcac / [M13r-TGCATAGACGTGTAAAACCTGCC	385	55

Legend:
Legend:
Exon: the number of the exon amplified (exon numbering). Name: primer name. Forward / reverse primer: sequence of the respective primers with exonic sequences given in upper case, intronic sequences in lower case and added primer tails in uppercase italics. All primers contain M13-tails facilitating sequence analysis of the amplified exon fragment; M13f = 5'-TGTAAAACGACGGCCAGT-3', M13r = 5'-CAGGAAACAGCTATGACC-3'. Length (in bp): length of the amplified fragment in base pairs (includes the M13 tails). Annealing T: annealing temperature (in ^oC) used during PCR. PCR-conditions: hot start max. 99 min. 95^oC; denaturation 5 min. 95^oC; 30 to 35 cycles of 30 sec. 94^oC (denaturation), 30 sec. 55^oC (annealing), 30 sec. 72^oC (elongation); final elongation 5 min. 72^oC.

Leiden Muscular Dystrophy data pages©

PCR and sequence analysis of DMD gene exons

Contents

Table of primer sequences

Leiden Muscular Dystrophy data pages^©