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Table 2 Reverse primers1 used in 5'RACE for amplification of 5' non-coding region of different ISAV segments using mRNA transcripts as template

From: Identification of the 3' and 5' terminal sequences of the 8 rna genome segments of european and north american genotypes of infectious salmon anemia virus (an orthomyxovirus) and evidence for quasispecies based on the non-coding sequences of transcripts

ISAV RNA segment

Primer sequence

Segment 1

ssp1: 5'-GCTCCAACTGCTGCTCTAC-3'

 

ssp2: 5'-CAGTACTCCTCGGTAGTTGG-3'

Segment 2

ssp1: 5'-GTGTTCAATCAGGTCTGACAT-3'

 

ssp2: 5'-CTCTGAAACCTGTTGCTACTAT-3'

Segment 3

ssp1: 5'-GTAACATCTGCCATGTCCAC-3'

 

ssp2: 5'-CTTCTGACAGGATTGCGCTG-3'

Segment 4

ssp1: 5'-CGTATGGCCCTCCTCTGTAA-3'

 

ssp2: 5'-CATGTGCTGATCGGTGTTGG-3'

Segment 5

ssp1: 5'-GTCTGGTACAGAATGGAACG-3'

 

ssp2: 5'-GTGCAACAGCTATCCAAGTC-3'

Segment 6

ssp1: 5'-GCGTCTGCTCGTCCAACAAGT-3'

 

ssp2: 5'-GCGTTGTCCAGTGTCATCGA-3'

Segment 7

ssp1: 5'-CAGACACTCCTCATAGTACC-3'

 

ssp2: 5'-GCATGTGTGACAGACCATC-3'

Segment 8

ssp1: 5'-CATCTGCATCCTGCTGTGTAG-3'

 

ssp2: 5'-CTTTCATCACACAGTAGAGAG-3'

  1. 1 The forward primer for PCR in all cases (i.e., with either ssp1 or ssp2) was the Universal Amplification Primer (UAP) that comes with the 5'RACE kit (Invitrogen).
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Virology Journal

ISSN: 1743-422X