Additional file 3 of Dynamic nanopore long-read sequencing analysis of HIV-1 splicing events during the early steps of infection

Additional file 3: Table S3. NL4-3 splice site counts in HIV-1 expressing samples. Reads overlapping potential SD/SA sites were counted and pooled for each HIV-1 expressing sample (infected T cells; Transfected HeLa cells; Infected HeLa cells; WT U1 HeLa: HeLa cells co-transfected with wild-type U1 snRNA and NL4-3 provirus; U1 D2upEx HeLa: HeLa cells co-transfected with modified U1D2upEx snRNA and NL4-3 provirus). Splice sites observed at least 5 times in a same splice junction of a transcript are highlighted in grey. Known SA/SD were named according to the established classification. Putative splice sites were considered as new only if they were represented in a splice junction of a transcript represented at least 5 times and if they were involved in a consensus splice junction (GT-AG).