TABLE 1.
Namea | Sequence (5′-3′) | Positionb |
---|---|---|
Oligonucleotides used in qRT-PCR | ||
SM16Sf | ACGCTCTAAAAAGGCGTGGGAATA | |
SM16Sr | TTGAGCTCGGGTCTTTAAGCAGTG | |
Orf1f | CCGTTACCTAACGTCACATAACCGTACT | 34 |
Orf1r | GCTGTAACTGAGACTTCCACCTCGTC | 185 |
FoxDf | CAACGAATGCACCTACCGAACC | 1131 |
FoxDr | GGGAAATGACATGGCGAGCATA | 1282 |
FoxCf | GAGTGGAACCATCGGTGCTATCAG | 1862 |
FoxCr | TTGCTGTATTCCAAGGAGGAGCTG | 2013 |
FoxBf | TGGTCCCTTGTAGGAACCTAGAGCA | 4081 |
FoxBr | TTTTTCGTGCTCGTGATTGTAGCTG | 4227 |
FoxGf | AAGGTGGCCCATGAAGTACTCC | 5320 |
FoxGr | CAAATAACTCCAGCACCGCAATG | 5471 |
FoxHf | CCATGAGGAAGTGGAGGACTAAAGC | 7232 |
FoxHr | GACGAGAACACTTTGACGTGACGA | 7379 |
FoxIf | TTCCTCTATGCATATATAACGGGGTTG | 8300 |
FoxIr | CATAGTTCACATGTGTCACAAAGGAAGA | 8446 |
FoxJf | GGTTAACGAGATGAGTGGGAGCA | 9120 |
FoxJr | AGGTTAACAATCCGAAGCCTGCTA | 9271 |
FoxEf | GGGGTTGTGGAATTGAAGGACA | 9734 |
FoxEr | AGACCAGCACCCCAAATGAGC | 9885 |
FoxFf | ACATCCGTCTCCACAGCGATAATG | 11788 |
FoxFr | CACGCTCACAAGAAAAGCGTATCC | 11937 |
FoxAf | GGCAGAATTCCAGGCAGATTGATA | 13038 |
FoxAr | TCCGAAGATGTTAATGCCAAGTCC | 13187 |
Orf2f | CGTCACAAGCCCCACTTTGAG | 14818 |
Orf2r | GCCGAACAAACGCGGTATCTC | 14965 |
SORf | GGGAATGGAGAAGGAATTTGAGGA | |
SORr | TGATGCCATGACTTTGCAGATAGC | |
Additional oligonucleotides | ||
FoxDr2 | CGGTGCACTGTCGATTTTAGCC | 952 |
FoxDf2 | AAGGCTCTCCTTCCGCTTAGGTG | 1352 |
FoxCr2 | CTTCATGTACCCCGAAAGGTTC | 2603 |
FoxCf2 | CTCAGGACAAGCCATCCAGGAG | 3029 |
FoxGr2 | TTCCAAGGATGTCTCCTATGAAGC | 5289 |
FoxGf2 | AAAAGGTTCCCATGGCTTAACGAC | 5750 |
FoxHr2 | TCCTCAATGTGACGGAAGGATCA | 6838 |
FoxHf2 | CAAGGGTGACCTTAGGATAA | 7125 |
FoxEr2 | GCTGGATTGAATATGATGTATACAAG | 10247 |
FoxFf2 | ACAAGGTATCTATAAGGGCCAACG | 11035 |
FoxAr2 | TGTAACGGATTCAGAAACGTGAAC | 12949 |
FoxAf2 | AAGCTGAACCCACTCAACCAACTC | 13579 |
Oligonucleotides are named for the ORF in which they bind. Primers used in pairs have identical names and bind in forward (f) or reverse (r) orientation.
Position of the 5′ nucleotide on the DNA fragment containing the fox genes.