SNP's
and Indel detected in Coconut kinase sequences
SNP_indel_type | 5_flanking seq | 3_flanking seq | SNP_cutter enzyme | Primer Sequences | GC % | Annealing temp | Product size | Product after SNP cutter | A indel, T-A, G-T, T-G, A-T, T-G, C-T, C indel, C-G, T-C, A-T, T-A, C-T, A-C, A indel, T-C | ATCATG | ATAATA | Dde1
Hpy1881
| FOR | CAAGCTTCTTAGGCACATGG | 50.00 | 58.53 | 266 | 76-404 | REV | AGAAGAGGAGGTTGCTTGGT | 50.00 | 57.89 | T-T, T-C, T-A, T-A, C-T, A-T | ACCACC | CAATGA | | FOR | CAAGCTTCTTAGGCACATGG | 50.00 | 58.53 | 265 | | REV | GAAGAGGAGGTTGCTTGGTT | 50.00 | 58.32 | G indel, T-G, C-T, T-C, A-T, C-A, A-C, T-A, G-T, C-G, G-C, A-T, T-A, G-T, A-G, T-A, T indel | AATGAT | TAATGG | AccI
Hpy1661I
BsrDI
Tsp5091
MseI
AseI | FOR | CAAGCTTCTTAGGCACATGG | 50.00 | 58.53 | 208 | 125,355 | REV | GAAGAGGAGGTTGCTTGGTT | 50.00 | 58.32 | G indel, C-G, T-C, G-T, T-G, C-T, T-C, G-T, A-G, G-A, A-G, G-A, C-A, A-C, C-A, T-C,T indel | AATCAA | GTCAGT | Mn1I, DdeI, Hpy1881, BsIHKAI, Bsp12861, HpyCH4111 | FOR | ACCACCTTCTGTGTGGGATA | 52.38 | 60.82 | 211 | 194, 286 | REV | AAGAAGAGGAGGTTGCTTGG | 50.00 | 58.52 | A indel, T-A, A-TC-A, A-C, T-A, C-C,
A-C, G-A, C-G, A-C, A-G, T-A, G-T, T-G,
C indel
| AAATAT | TTCACAGA | FaiI | FOR | CAAGCTTTGTCTGAGGAGCA | 50.00 | 59.31 | 170 | 246,234 | REV | GTACGAGCAAGTCCAAAGTCG | 50.00 | 59.07 | A indel, C-A, T-CG-T, T-G, G-T, A-G, T-A, A-T, G-A, A-G, T-A, T-indelC-T, C-T | AATGCT | TTTGGACT | HypCH4III
MseI | FOR | CAAGCTTTGTCTGAGGAGCA | 50.00 | 59.31 | 177 | 314,116 | REV | TGAGGTAGTACGAGCAAGTCCA | 50.00 | 59.94 | A-indel, G-T, A-G, C-A, A-C, G-A, A-G,
G-A, T-G, A-T, T-A, G-T, T-G, G-T, T-G, G-T, T-G, A-T, A-indel | TGATTTC | CAAGATGG | N1AIII
BspHI
FatI | FOR | CAAGCTTTGTCTGAGGAGCA | 50.00 | 59.31 | 230 | 373,107 | REV | AAATCTGGTGCCCGATACCATCTCT | 57.89 | 60.90 | T-C, C-A, A-G, G-A, A-G | ATGGTA | TTGAAT | NIaIV | FOR | AAACCAAGCAACCTCCTCTTC | 47.62 | 59.74 | 166 | 396,84 | REV | GCTGCAGTATACTCTGAAGAATTCAA | 38.46 | 60.32 | G-indel, A-G, G-A, T-A, A-T, T-A, A-T, C-A, T-C, G-T, C-G, A-C, G-A, C-G, A-C, T-A, G-T, A-G, T-A, G-T, T-G, C-T, T-G, G-T | . | | AccI
Hpy166II | FOR | ACCACCTTCTGTGTGGGATAC | 52.38 | 58.78 | 386 | 430, 50 | REV | GAAAATGCAACCGACTGACC | 50.00 | 60.50 |
|