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MBP transcripts, for instance, were upregulated 3.2-fold (P<0.001).
Such features not only described the base-pairing structures of miRNA:miRNA ∗ complex but also captured RNA stability characteristics that associate with different regions on the pre-miRNA transcripts; for instance, a bulge at lower stem region (5′-flanking region of the duplex window in Figure 2) may help to create higher free energy for Drosha cleavage.
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Therefore, we scanned the upstream regions of all protein-coding transcripts for instances of the sequence TATAAA.
Here, we used ModuleMaster to scan the upstream regions of all protein-coding transcripts for instances of the nine discovered motifs, with the goal of determining the distribution of the motifs in the upstream regions of transcripts other than RPGs.
Introns were grouped by their positions from the 5' end of the transcript; for instance, all first introns were in the first group.
Different splicing efficiencies for HML-2 transcripts may also affect cloning likelihoods of corresponding proviral transcripts if, for instance, full-length transcripts are efficiently spliced down to env or rec mRNA, making it less likely to catch gag portions as cDNA, as opposed to splicing-deficient transcripts.
Other differentially expressed transcripts, as for instance Tgfb2 and Hoxa10 (Additional file 3), as well as Cdc51 and Hoxb9 (Additional file 4), play important roles in cell proliferation and differentiation but have not been addressed in the current study.
'Extract-as' takes as input a GTF transcript file, for instance one produced by a transcript assembly program or a set of gene annotations, and compares all pairs of transcripts within a gene to determine exon-intron structure differences that indicate an AS event.
The mechanism of anti-termination involves a structural change in the RNA transcript that is dependent on the interaction of the transcript with, for instance, a regulatory protein [ 4], a tRNA [ 5] or a metabolite [ 6].
Various examples have been well documented where HERV sequences influence the transcription of cellular genes or alter the structure of cellular transcripts [for instance, see references [ 5- 11]].
Among the 1440 transcripts in this list, for instance, transcripts corresponding to the quantitatively most important proteins of oxidative stress defense are found.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com