Table 3 |
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Primers designed from Asclepias syriaca microreads hitting COSII alignments |
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|
Primer Set Name |
Orientation |
Primer Sequence (5'-3') |
Annealing Temp. (°C) |
|
|
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|
At1g24360a |
FORWARD |
GCAAGATCATCAAAGGAGGCA |
59.0 |
|
REVERSE |
GATTTAGATCAATAACCTCCTGCCA |
||
|
|
|||
|
At1g24360b |
FORWARD |
GGAGGTTATTGATCTAAATCTCAC |
56.3 |
|
REVERSE |
AACAAGGCCAACAACTGATG |
||
|
|
|||
|
At1g24360c |
FORWARD |
CAATTACAGTGCTGCAAAAGCTG |
60.0 |
|
REVERSE |
CATATCAGATGCAATGAATCCGGG |
||
|
|
|||
|
At1g44760a |
FORWARD |
TACTCATGTTACTAATAAGGGTGA |
- |
|
REVERSE |
CTTTGCTTTGCTTCCTCACTC |
||
|
|
|||
|
At1g55880a |
FORWARD |
ATGTACACAAAAGAGGAGGCTG |
54.0 |
|
REVERSE |
GATGCCTCATCCCACTATCAC |
||
|
|
|||
|
At1g77370a |
FORWARD |
CCAAAGCGCCATCTACTCCA |
60.0 |
|
REVERSE |
GGCCAACCAAATCCAGAAGAAT |
||
|
|
|||
|
At2g03120a |
FORWARD |
GAAGGTAGATCCAAATTTGAATGTC |
58.0 |
|
REVERSE |
GCAAGTCAACACAGCATTAAC |
||
|
|
|||
|
At2g06530a |
FORWARD |
GTGAAGGTAATGGCCAAAGATC |
58.0 |
|
REVERSE |
GTAACACCTTTCATTGCTTCTCC |
||
|
|
|||
|
At2g21960a |
FORWARD |
ATTGGGGTTTCTTTGTTCCATAC |
53.0 |
|
REVERSE |
GCAGATTGGCCAACAACTTTG |
||
|
|
|||
|
At2g21960b |
FORWARD |
GTTGTTGGCCAATCTGCAGA |
59.0 |
|
REVERSE |
TTTGTTGCTGATCTTTGCTAAGC |
||
|
|
|||
|
At2g30200a |
FORWARD |
ACAAGCTGTTGGAATGGGTG |
55.0 |
|
REVERSE |
ATCTCAACTGCAGCTAAGCTG |
||
|
|
|||
|
At2g30200b |
FORWARD |
ATCTATGTCACCAGCTTAGCTG |
58.3 |
|
REVERSE |
TTTGAATGATTTTGCCTTTGCTTC |
||
|
|
|||
|
At2g30200c |
FORWARD |
CAAAGGCAAAATCATTCAAAGC |
56.3 |
|
REVERSE |
TGCATCAACATTTGATATTACTGG |
||
|
|
|||
|
At2g34620a |
FORWARD |
TTCAGAAAGGTCATCAACAAATG |
57.8 |
|
REVERSE |
GCTGAAAGTGAACAAACCTGG |
||
|
|
|||
|
At2g34620b |
FORWARD |
TGCCAACATTTCTTTACAATTCAAG |
52.0 |
|
REVERSE |
none |
||
|
|
|||
|
At2g47390a |
FORWARD |
GTCTTGGTACAAAACACGCAAG |
59.0 |
|
REVERSE |
TCAGTTTTAGATTCTTTAGAGGTAAG |
||
|
|
|||
|
At2g47390b |
FORWARD |
CTAATGAGTTTGCTGGCATTGG |
- |
|
REVERSE |
CACCATGTCCTTTGAGTGCG |
||
|
|
|||
|
At4g13430a |
FORWARD |
GAGCAAAACATAAAGTACTTCTA |
48.0 |
|
REVERSE |
CATTTCACCATCCATAACAA |
||
|
|
|||
|
At4g13430b |
FORWARD |
GTGCCTCCAACATTGAGATTTG |
59.0 |
|
REVERSE |
CATTCTCTAGCCAAAGCACGA |
||
|
|
|||
|
At4g13430c |
FORWARD |
GTGCTTTGGCTAGAGAATGCA |
60.0 |
|
REVERSE |
CAAGACAAGCACCACAACTAGG |
||
|
|
|||
|
At4g26750a |
FORWARD |
GCCTGATGACCATTTACATCTTG |
- |
|
REVERSE |
TACAGGTCTCCTCCCTTCTTTC |
||
|
|
|||
|
At5g13420a |
FORWARD |
TGGTATGACAACCTGTGCCG |
55.0 |
|
REVERSE |
GTATCATCAGCAAGTCTTGGTGAA |
||
|
|
|||
|
At5g13420b |
FORWARD |
CTCCATGCGTCCCTTCAATC |
60.5 |
|
REVERSE |
TGGCACCTTTCTTCACCAGAG |
||
|
|
|||
|
At5g23540a |
FORWARD |
GTGTTGAAGCGGTTGATCATG |
- |
|
REVERSE |
TCCATCTGTCCATTTTTTCTTATGA |
||
|
|
|||
|
At5g23540b |
FORWARD |
none |
52.0 |
|
REVERSE |
AAGGCATCAATTACCACTTTCC |
||
|
|
|||
|
At5g49970a |
FORWARD |
GTAGCTGCTCGTCATTTATATC |
55.8 |
|
REVERSE |
GAGAATCCAAACATTGCATCA |
||
|
|
|||
|
At5g49970b |
FORWARD |
TTGATGCAATGTTTGGATTCTC |
57.8 |
|
REVERSE |
GGCACACAATTTTGGAGCAG |
||
|
|
|||
|
Multiple primer sets were designed for loci where multiple read hits allowed potential amplification of different introns. Primer set names correspond to the orthologs of these genes in Arabidopsis. Listed annealing temperatures were used in amplifications of Asclepias samples. An annealing temperature of 55°C was used for all loci for amplifications of other Apocynaceae samples. |
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|
Straub et al. BMC Genomics 2011 12:211 doi:10.1186/1471-2164-12-211 |
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