Previously annotated and novel EHV-1 transcripts.

This table summarizes previously annotated and novel transcripts, along with their TSSs, validated through multiple sequencing approaches, including CAGE, direct cDNA, and direct RNA sequencing. Details of transcript features and splicing events are organized across three sheets: Sheet A: Previously Published Transcripts Lists previously annotated transcripts and incorporates their TSSs validated in this study. Sheet B: Novel Transcripts Provides details of transcripts newly identified in this study through TSS-TES pairing. Sheet C: Comparison of LoRTIA and NAGATA for Intron Annotation Lists introns annotated from dRNA sequencing data, comparing results obtained using LoRTIA and NAGATA. Columns include: ● Gene: name of the associated gene. ● Transcript name: identifier of the transcript. ● Transcript category: type of transcript (e.g., monocistronic, multicistronic, antisense, or non-coding). ● Start and Stop sites (5′- and 3′-ends), and introns: genomic coordinates of the transcript and intron positions (if spliced). ● Intron donor and acceptor sites: genomic coordinates of the intron donor and acceptor sites. ● Sequencing validation: indicates the presence or absence of the transcript’s TSS as identified by dRNA-Seq (via NAGATA), CAGE-Seq, and dcDNA-Seq. ● Confirmed putative embedded mRNAs: highlights previously annotated transcripts that met the 5% relative abundance threshold in CAGE data (compared to the canonical transcript), which was applied to novel putative mRNAs. (XLSX)