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Table 3 Details of 71 genic-SSR loci showing polymorphism among 8 pigeonpea cultivars

From: Development of genic-SSR markers by deep transcriptome sequencing in pigeonpea [Cajanus cajan (L.) Millspaugh]

S. No. Marker Id. (SSR Motif)n Product size No. of alleles PIC value
1 ASSR1 (GA)10 100 2 0.47
2 ASSR3 (AGAAAG)5 145 2 0.47
3 ASSR5 (AAATT)6 130 2 0.36
4 ASSR8 (AGA)9 140 2 0.50
5 ASSR9 (AGA)8 150 2 0.23
6 ASSR11 (CTC)7 140 2 0.23
7 ASSR12 (AACAC)6 165 2 0.38
8 ASSR13 (ATTAG)5 160 2 0.37
9 ASSR15 (CAA)8 150 2 0.38
10 ASSR16 (GTT)9 150 2 0.23
11 ASSR17 (CCTTCT)6 180 2 0.38
12 ASSR19 (TGTTCA)5 160 2 0.38
13 ASSR20 (AT)11 140 2 0.23
14 ASSR23 (CCTTCT)5 150 2 0.47
15 ASSR48 (AAGAGG)6 150 2 0.30
16 ASSR66 (CT)12 180 2 0.44
17 ASSR70 (GGTAGA)6 170 2 0.45
18 ASSR77 (CT)10 140 2 0.41
19 ASSR93 (CATTTG)5 170 2 0.47
20 ASSR97 (ATGGAC)8 150 3 0.66
21 ASSR100 (GGT)7 150 2 0.23
22 ASSR108 (GAT)7 150 2 0.23
23 ASSR109 (GAA)10 140 2 0.38
24 ASSR120 (CTT)7 160 2 0.38
25 ASSR148 (CAA)7 110 2 0.50
26 ASSR153 (GAG)8 150 2 0.23
27 ASSR155 (TGGACA)5 130 2 0.23
28 ASSR169 (TCA)7 160 2 0.23
29 ASSR182 (ATT)7 220 2 0.38
30 ASSR205 (ATGAAG)11 170 2 0.38
31 ASSR206 (GTAATA)6 150 2 0.47
32 ASSR207 (ATCT)5 190 2 0.23
33 ASSR221 (TCG)8 165 2 0.23
34 ASSR228 (CTAAGG)5 140 3 0.53
35 ASSR229 (TAAGGG)5 160 3 0.53
36 ASSR230 (GAGCAT)9 170 2 0.38
37 ASSR236 (ACTAGC)10 230 2 0.23
38 ASSR237 (GGTGAA)7 180 2 0.23
39 ASSR247 (CACCAA)6 180 2 0.38
40 ASSR253 (CCCAAG)6 150 2 0.23
41 ASSR258 (CCATA)5 140 2 0.23
42 ASSR277 (TCCTGT)5 130 2 0.50
43 ASSR280 (TGGCAT)5 170 2 0.23
44 ASSR281 (CAAATG)6 220 5 0.83
45 ASSR286 (TGTTCA)5 160 2 0.38
46 ASSR293 (AGA)7 130 2 0.38
47 ASSR295 (ATA)8 140 2 0.38
48 ASSR297 (GCCACC)5 180 2 0.38
49 ASSR304 (GTT)7 110 2 0.50
50 ASSR317 (GAGCAT)9 150 2 0.47
51 ASSR352 (TTTAA)6 130 2 0.47
52 ASSR363 (GCATCA)5 190 2 0.50
53 ASSR366 (CGT)8 140 2 0.47
54 ASSR379 (TTCATG)5 140 2 0.47
55 ASSR380 (TTTC)5 170 2 0.23
56 ASSR390 (GAGCAA)6 190 2 0.50
57 ASSR408 (CAC)6 190 2 0.37
58 ASSR416 (TGA)6 210 2 0.37
59 ASSR427 (CT)9 170 2 0.37
60 ASSR495 (CT)9 200 2 0.50
61 ASSR610 (GTG)6 150 2 0.50
62 ASSR613 (CCA)6 150 2 0.21
63 ASSR895 (ATT)6 150 2 0.22
64 ASSR911 (AAT)6 140 2 0.47
65 ASSR980 (AAC)6 150 2 0.37
66 ASSR1193 (CA)9 180 2 0.47
67 ASSR1432 (TTC)6 140 2 0.47
68 ASSR1486 (TTG)6 140 2 0.37
69 ASSR1689 (AAT)6 140 2 0.37
70 ASSR1737 (TA)9 150 2 0.50
71 ASSR1848 (CAT)6 150 3 0.59
  Average    2.1 0.38
  1. Annealing temperature for all 71 markers was 55°C. *Primer details and gene annotation is shown in Additional file 4.