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Table 1 Strength of context surrounding the AUG codons (Kozak sequence) in the mRNA of each segment of ISAV

From: Virtual screening of gene expression regulatory sites in non-coding regions of the infectious salmon anemia virus

Segment

AUG context

Strenght

1

CUAA GAAUG G

Optimal + 0

2

AUAA CC AUG G

Optimal + 2

3

UAAG AGAUG G

Optimal + 0

4

UUC A AGAUG G

Optimal + 1

5

UUAA AGAUG G

Optimal + 0

6

GC AA AGAUG G

Optimal + 2

7

UC UA C AAUG G

Optimal + 2

8 ORF 1 (R, N)

UUUA CC AUG A

Strong + 2

8 ORF 1 (3, 9, A, G)

UC UA CC AUG A

Strong + 3

8 ORF 2

AUC A C AAUG G

Optimal + 2

  1. Segments 1 to 7 have an optimal sequence for the initiation of protein synthesis; differences were observed only in the number of non-critical nucleotides. ORF 1 of segment 8 has a strong sequence for the initiation of protein synthesis and has 2 variants. The presence of nucleotides matching the Kozak consensus is indicated as follows: bold letters, critical nucleotides; bold-italics, non-critical nucleotides; italics, AUG codon.