Mapping of sequences in the 5’ region and 3’ UTR of tomato ringspot virus RNA2 that facilitate cap-independent translation of reporter transcripts in vitro
Fig 2
Regions of sequence identity in the 5’ and 3’ regions of the genomic RNAs of selected ToRSV isolates.
(A) Schematic diagram of the ToRSV RNA2 showing regions (orange bars) with high sequence identities amongst ToRSV isolates. The 5’ region of the two genomic RNAs of many ToRSV isolates are nearly identical in the first 900 nts. The first 150 nts and last 650 nts of the 3’ UTRs of the two genomic RNAs are also highly conserved amongst ToRSV isolates. (B) Sequences alignments of the first 500 nts of the two genomic RNAs (RNA1: R1, RNA2: R2) from selected ToRSV isolates showing putative start codons. The three putative start codons are shown in red. The predicted complementary stem sequences of a putative stem-loop (5’ SL) structure located after the first AUG are shown with arrows. NCBI accession number are as follows: ToRSV-13C280 R1 (KM083890), ToRSV-13C280 R2 (KM083891), ToRSV-GYV R1 (KM083892), ToRSV-GYV R2 (KM083893), ToRSV-Rasp1 R1 (KM083894), ToRSV-Rasp1 R2 (KM083895). Please see S1 and S2 Figs for additional sequence alignments of the 5’ region and 3’ UTR of ToRSV RNAs.