There are four evolutionarily conserved binding sites which can be found in the promoter region of UPR related genes, known as: ER stress response element (ERSE, consensus sequence
: CCAAT-N9-CCACG), UPR element (UPRE, consensus sequence
: TGACGTGG/A), ERSEII (consensus sequence
: ATTGG-Nl-CCACGT), and UPREII (consensus sequence
We aligned published genomes of nonsylvatic DENV-2 and used them to generate a 90% consensus sequence
that formed the target for primer design.
The analysis of the E1 envelope glycoprotein gene identified variations at 4 nucleotides positions, compared to the to the consensus sequence
from the Americas (Figure 3).
1), evidenced by the fact that only 26 of the 130 individuals studied showed nucleotide changes from the consensus sequence
The binding pocket within BRCT domains specially recognizes F and has consensus sequence
Wang et al., "A highly conserved G-rich consensus sequence
in hepatitis C virus core gene represents a new anti-hepatitis C target," Science Advances, vol.
Cloning of aDNA products is essential because it allows different individual sequences, rather than a consensus sequence
, to be obtained.
However, when the number of loci included in a particular sequencing run is increased, there is a need to optimize the uniformity of coverage because the genotyping and the consensus sequence
generated are only as good as the lowest point of coverage.
The Chr 1 consensus sequence
for each strain was constructed using the SAMtools consensus parameters.
Consequently, there is a clear need for a NGS based HLA genotyping method and analytical pipeline that not only can generate accurate HLA genotyping information, but also generate an accurate, fully phased HLA consensus sequence
for both genotyped alleles.
In order to compare the consensus sequence
(~1400bp) with other sequences available on GenBank database <http://www.ncbi.nlm.nih.
Based on the position of the second exon of NR_040073.1, we speculated that 1 -363 bp may be the consensus sequence
of FAMLF RNAs.