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. Author manuscript; available in PMC: 2023 Aug 1.
Published in final edited form as: Mol Microbiol. 2023 Feb 27;119(4):515–533. doi: 10.1111/mmi.15046

Table 1).

Chimeric junctions mapped from three Hi-GRIL-Seq replicates and IntaRNA interactions

Target
Transcript
Genome Hi-GRIL-Seq
Chimeras
SviR
Range
Predicted
Interaction ΔG°
Target
Range
orf12.1 PLE 516±77.25 157 to 179 −19.46 kcal/mol −27 to −5
orf12 PLE 101.33±15.5 155 to 179 −10.42 kcal/mol −28 to −4
capR (orf2) PLE 51.66±8.3 N/A N/A N/A
gp120 ICP1 44±12.5 35 to 48 −11.85 kcal/mol −11 to +3
gp203 ICP1 30±14.4 37 to 64 −21.91 kcal/mol −35 to −2
orf3 PLE 29±1 N/A N/A N/A
gp107 ICP1 25.6±8.7 N/A N/A N/A
gp59 ICP1 25.3±8.1 41 to 63 −17.83 kcal/mol −20 to +2
orf18 PLE 19±2.64 N/A N/A N/A
gp82 ICP1 15.3±10 20 to 48 −12.86 kcal/mol −12 to +22
gp78 ICP1 15±7.9 N/A N/A N/A
orf7 PLE 14.33±2.8 150 to 177 −16.85 kcal/mol −2 to −21
gp53 ICP1 12±7.2 33 to 52 −23.14 kcal/mol −7 to −27

The number of SviR-Target chimeric junctions with at least 10 junctions and the predicted IntaRNA interactions for each target. Junctions that mapped to within 50 bp upstream of the start codon of an ORF were attributed to the downstream ORF. Junctions that mapped to targets not predicted to interact with SviR by IntaRNA are qualified with N/A. Target ranges are relative to the start of translation, when applicable, and refer to predicted base pairing interactions as determined by IntaRNA.