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Sequencing of the two bands separately, by excision of the bands from the gel, revealed this to be a transcript containing part of intron 17.
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CO538443 is transcribed from a transcript containing the complete exons of hydramacin-1, and DN603666 originated from the arminin 1b gene.
The software Trinity was used to produce a transcript containing 50 612 sequences.
The authors state explicitly that RRS is best suited to classify a transcript as containing or lacking a single, predominant long open reading frame, not to choose which stop codon in that transcript is utilized: "RRS is not designed to identify specific translated regions within a transcript containing multiple overlapping or nearby translated regions" (Guttman et al., 2013).
Hence, for a transcript containing several exons, there are a large number of combinations of aligned-segments.
Genes with multiple transcripts were collapsed into a single transcript containing all exons of the gene; where multiple exons of different size overlapped the same genomic region, the entire region was kept.
An exon is considered to be of CES type if there is a transcript to which belongs such that there is a transcript in the orthologous gene that contains the exon and has very similar exonic structure.
The ADAR2ΔN is more likely to rescue nonspecific, promiscuous editing events lost in the Adar1 mutant than it is to edit some transcript containing a highly ADAR1-specific site.
One explanation for an abrupt and complete loss of env is anomalous splicing of a genomic transcript containing gag-pol-env.
This ASV is identical to the one that was previously identified in a human ADAR2 transcript containing a 47-nucleotide insertion at the analogous position [ 18, 20, 27].
In-depth investigation revealed that the associations to TTLL have been projected via a read-through transcript containing an Arp2/3 subunit and TTLL from human, underscoring the necessity to assess fusion transcripts in future analyses and to include gene expression data to validate and disentangle predicted protein complexes.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com