Table 5.
Relationships between transferability and polymorphism of SSR markers and location of primer pairs and SSR loci in gene.
| Genus | Locus | Primer Binding Site Location 1 | Amplification | Locus Location | F. × ananassa | Rubus 3 | |||
|---|---|---|---|---|---|---|---|---|---|
| Fragaria | Rubus 2 | Number of Alleles | Polymorphism | Number of Alleles | Polymorphism | ||||
| Both Binding Sites Located in Exons | |||||||||
| Fragaria | FaFH01 | ex1–ex2 | + | + | in1 | 5 | + | 8 | –/+/+/+/–/+ |
| FaFS01 | ex2–ex3 | + | + | in2 ex3 |
14 | + | 8 | +/–/+/+/–/+ | |
| FaFS02 | ex1–ex1 | + | + | ex1 | 1 | – | 1 | – | |
| FaAR01 | ex4–ex5 | + | + | ex4 in4 |
2 | – | 1 | – | |
| FaTG01 | ex2–ex2 | + | + | ex2 | 1 | – | 3 | –/–/–/+/–/– | |
| Rubus | RiAS01 | ex2–ex2 | + | + | ex2 | 2 | – | 5 | +/–/+/+/+/+ |
| RhUF01 | ex2–ex2 | – | + | ex2 | – | n | 5 | + | |
| RiTT01 | ex–ex | – | + | exon | – | n | 1 | – | |
| One of Binding Sites Located in Exon another in Intron or 5′UTR | |||||||||
| Fragaria | FaMY02 | in2–ex3 | +/– | – | in2 | 14 | + | – | n |
| FaLR01 | ex2–in2 | +/– | –/–/–/+/+ | in2 | 4 | + | 2 | n/n/n/n/+/+ | |
| FaFG01 | 5′UTR–ex1 | + | – | 5′UTR ex1 |
8 | + | – | n | |
| FaAS01 | in–ex2 | + | – | ex2 | 1 | – | – | n | |
| FaCH01 | 5′UTR–ex1 | + | +/–/+/+/+ | 5′UTR ex1 | 2 | – | 3 | +/n/n/+/–/+ | |
| FaCH02 | in–ex2 | + | – | ex2 | 4 | + | – | n | |
| Rubus | RiHL01 | ex1–in | + | + | in | 4 | + | 2 | +/–/–/–/–/– |
| RcFH01 | in2–ex3 | – | + | in2 | – | n | 5 | +/+/–/+/–/+ | |
| RiG001 | in–ex2 | – | +/–/–/–/– | in | – | n | 2 | +/n/n/n/n/n | |
| Both Binding Sites Located in Intron, 5′UTR or Upstream | |||||||||
| Fragaria | FaMY01 | in2–in2 | +/– | – | in2 | 4 | + | – | n |
| FaDR01 | up–5′UTR | +/– | – | up | 9 | + | – | n | |
| FaF3H01 | 5′UTR–5′UTR | + | – | 5′UTR | 4 | + | – | n | |
| FaBG01 | up–up | + | – | up | 9 | + | – | n | |
| One of Binding Sites Located across Exon/Intron Junction | |||||||||
| Rubus | RiMY01 | ex1/in1–ex2 | + | +/+/+/+/– | in1 | 2 | + | 17 | +/–/+/+/+/n |
| RhDR01 | in2–in2/ex3 | – | – | in2 | – | n | – | n | |
| RhDR02 | ex1–in1/ex2 | – | – | in1 | – | n | – | n | |
| RhAR01 | ex5–ex5/in5 | – | – | e5 | – | n | – | n | |
1 in—intron, ex—exon; up—upstream; the number is not provided in case, if gene has only a single or no intron. 2 R. idaeus/R. occidentalis and blackberry/hybrids/R. chamaemorus and R. arcticus/R. × stellarcticus. 3 R. idaeus/R. occidentalis/blackberry/hybrids/R. arcticus/R. × stellarcticus. n—no amplification.