diff --git a/assays/biparental_mapping/protocols/CAPS_marker_analysis.md b/assays/biparental_mapping/protocols/CAPS_marker_analysis.md index 1d3e55f659fccd96d4215bf7a97d1b91ebd70469..a6e402ba7433adcb5eb167b024c051131ac2eec7 100644 --- a/assays/biparental_mapping/protocols/CAPS_marker_analysis.md +++ b/assays/biparental_mapping/protocols/CAPS_marker_analysis.md @@ -8,20 +8,23 @@ digest: - digesting 5µl of PCR fragments with the CAPS-marker specific restriction enzyme: -Marker Primer Sequence 5’-3’ Enzyme annealing temp (°C) EAM7 allele: fragment size (bp) eam7 allele: fragment size (bp) -M-13 F GTAATTGCCCTAGCGTTGGA MnlI 58°C 246, 98 328 - R CAGAACCCGGGAATTAGGAT -M-16 F AAAACGGTGGCATTAGCAAG HindIII 58°C 378 214, 168 - R CGGAGGCATGATCAGGTATT -M-11 F AAAGGCCCACACTAGTGCAT BstUI 58°C 209, 128 337 - R ACGCTCACTCCCTGCATCT -M-39 F CTAAATTTCAGCCCCGAACA DdeI 55°C 237,100 334 - R TGCCTGGACTTGTTCTGATG -M-PRR1 F GAGCATAGCATGGCACTTCA Hpy188I 58°C 224, 158 383 - R GCCTGCCTAACAAACTGACC -lwd1-del F TACCATCCTCCCATTGCCTG - 60°C 199 167 - R ATTGGCTTACACTGCAGGGG +| Marker | Primer | Sequence 5’-3’ | Enzyme | annealing temp (°C) | EAM7 allele: fragment size (bp) | eam7 allele: fragment size (bp) | +| ------ | ------ | ------ | ------ | ------ | ------ | ------ | +| M-13 | F | GTAATTGCCCTAGCGTTGGA | MnlI | 58°C | 246, 98 | 328 | +| | R | CAGAACCCGGGAATTAGGAT | +| M-16 | F | AAAACGGTGGCATTAGCAAG | HindIII | 58°C | 378 | 214, 168 | +| | R | CGGAGGCATGATCAGGTATT | +| M-11 | F | AAAGGCCCACACTAGTGCAT | BstUI | 58°C | 209, 128 | 337| +| | R | ACGCTCACTCCCTGCATCT | +| M-39 | F | CTAAATTTCAGCCCCGAACA | DdeI | 55°C | 237, 100 | 334 +| | R | TGCCTGGACTTGTTCTGATG | +| M-PRR1 | F | GAGCATAGCATGGCACTTCA | Hpy188I | 58°C | 224, 158 | 383 +| | R | GCCTGCCTAACAAACTGACC | +| lwd1-del | F | TACCATCCTCCCATTGCCTG | - | 60°C | 199 | 167 | +| | R | ATTGGCTTACACTGCAGGGG | -Marker Primer Sequence 5’-3’ Enzyme annealing temp (°C) ppd-H1 allele: fragment size (bp) Ppd-H1 allele: fragment size (bp) -M-PPDH11 F ACGTGAATGGTGGATCGGC BstUI 60°C 506 433, 73 - R TATAGCTAGGTGCGTGGCG + +| Marker | Primer | Sequence 5’-3’ | Enzyme | annealing temp (°C) | ppd-H1 allele: fragment size (bp) | Ppd-H1 allele: fragment size (bp) | +| ------ | ------ | ------ | ------ | ------ | ------ | ------ | +| M-PPDH11 | F | ACGTGAATGGTGGATCGGC | BstUI | 60°C | 506 | 433, 73 | +| | R | TATAGCTAGGTGCGTGGCG |