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The results place the most upstream initiation site somewhere between the S2 and S3 primers, and place a stronger downstream site between the S4 and S5 primers.
Firstly, the relative quantification of Bcl-2 family members at a transcript level may not reflect their respective protein activity and the upstream initiation of apoptosis.
Transcription from novel initiation site 4 (PCA3-4), juxtaposed immediately downstream of the FP2 region containing the 3 SRY consensus binding sites (Supplementary Fig. S2), was significantly higher compared with the other three upstream initiation sites as judged by qPCR (results not shown).
The second upstream initiation codon was found ten bases upstream (−10 position) but out-of-frame from the cic.
Upstream open reading frames (uORFs) and alternative upstream initiation codons (uATGs) were screened in the 5'-UTRs using computational methods.
Alternative upstream initiation codons (uATGs) and upstream open reading frames (uORFs) in the 5'-UTRs of many genes were also identified.
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TATA box sequences (TATATAA; Grace et al. 2004) which are present just upstream of initiation codons were identified between 77 and 152 bp upstream from the ATG for the 12 OsGLP genes, but not in the OsGLP8-6 insequencesequence.
The 35S promoter was subsequently replaced by the putative AtIPS1 promoter (1000 bp upstream the initiation codon), and the resulting construct was used for transient expression assays.
As a control group, 200 bp upstream the initiation codon was extracted for 99 genes (full-length) randomly selected from M. tuberculosis H37Rv.
In contrast, the presence of common regulatory elements spanned a major region in the promoter of the PtGS2 duplicate (about 1300 bp upstream the initiation of translation).
For the mitochondrial DNA ligase (LIG3α), import into mitochondria is achieved by providing an MTS through the use of an upstream translation initiation codon.
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