This sequence stretch has 95 100% base pair conservation between different Drosophila species, higher than that found in most neurexin exons.
The comparative RNA website (Cannone et al. 2002) hosts base pairing conservation values that were derived from an alignment of 326 bacterial, 312 mitochondrial, and 103 plastid rRNAs (Mears et al. 2002).
For all four types of base pairs, the conservation levels in mitochondria are much lower than those in chloroplasts, which in turn are very similar to those of bacteria.
We visualized the level of conservation of these aligned Alu sequences by counting the number of aligned perfect matches to an 8 base pair moving window of the Alu consensus sequence [33].
Information available includes images of embryonic, larval and adult expression patterns, sequence conservation, base pair length, genomic location, and keywords to facilitate searches.
In order to evaluate their genetic diversity and to support efforts towards their conservation, we analyzed genetic variation in ~ 600 base pairs (bp) of the mitochondrial control region I and at 12 19 nuclear microsatellite loci.
These resources are used to microRNA target predictions based on sequence complementarity, including TargetScan [ 5], PicTar [ 7], and TargetRank [ 8], which provide precise base pairing of the miRNA to the seed region and sequence conservation.
Similar targets were also confirmed with other prediction software that employ stringent base pairing and evolutionary conservation, including PicTar (http://pictar.bio.nyu.edu/) and EMBL (http://www.ebi.ac.uk/embl/).ac.uk/embl/
The sRNA mRNA interactions studied here exhibit only a small number of compensatory base pair changes, which might be because sRNA sequences often show poor conservation across distant bacterial species.
To assess conservation of base pairs in the stems, we aligned human and mouse hairpins from corresponding strands and regions with LAGAN [66].
