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This transcript contained two ORFs of similar size (Figure 2A).
Two ORFs of adequate length exist in the transcript, both with a C at position +4 instead of the consensus nucleotide G.
The majority of these OCs (seven OCs) were composed of two ORFs, with increasing numbers of up to five ORFs.
One possibility is that each of these ORFs expresses two populations of transcripts: one type of transcript may be aberrant and be targeted for degradation by the exosome, and a second set may be functional.
Transcripts of these two ORFs were not detected in our preliminary transcription analysis by northern blotting (Additional file 2).
Additionally, if two ORFs overlapped for >50% of the length of the shorter putative transcript, only the longest of the two was retained.
The analysis considered all transcripts with at least two ORFs and more than 30 nucleotides interORF.
PMCHL transcripts encompassing exons 1-2a and 1-2b harbour two ORFs, named ORF1a and ORF1b, respectively.
In the majority of eukaryotic nuclear genomes, a transcript is unlikely to have two different ORFs of the opposite direction, especially if each of these ORFs is highly similar to known coding sequences, of sufficient length, and there is no substantial overlap between these ORFs.
Seven of the nine pan edited genes contain up to three ORFs that start within 60 nucleotides of the 5' end of the pre-edited transcript (Table S1).
Of the four ORFs in RTBV, ORF 3 and 4 correspond to ORF y and z of ERTBVs, but ORF 2 is absent from ERTBVs.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com