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Below, the alignment of the sequence surrounding the AKIN10 target sites and the SnRK1 consensus motif (Huang and Huber, 2001 ) are shown.
As will be discussed below, the alignment of new transcriptome data provided evidence for most of the previously un-annotated genes in the honey bee genome.
Below the alignment are the locations of the cis-elements in this region.
The consensus sequence is shown below the alignment.
A consensus sequence is given below the alignment.
The positions of conserved introns are marked by colored arrows below the alignment.
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Symbols below the alignments denote secondary structure elements assigned using PDBsum (Laskowski et al., 1997 ) based on the crystal structures of yPrp3CTF (this study), Bos taurus AcyP (PDB ID 2ACY) (Thunnissen et al., 1997 ) and the R. sphaeroides BLUF domain (PDB ID 2BYC) (Jung et al., 2005 ).
For these tests, to reduce number of trees to be considered, analyses were performed with the grouping of the sequences to form a reduced number of the dataset (36 OTUs, 202 sites) with Codeml in PAML 3.13 [ 22] under the WAG+G model (Additional file 5, see below) (for the alignment, see Additional file 6).
Below, an alignment of the sequences surrounding the phosphorylation sites not targeted by AKIN10 is depicted.
Below, the turkey-chicken chromosome alignment is described on a chromosome-by-chromosome basis.
Below the MS/MS spectra, the alignment between the Sanger (top) and TIGR (below) annotation is shown, indicating that the identified sequence was only annotated as part of the Aspartate transaminase gene in the TIGR dataset (underlined).
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