To explore potentially important residues for Jmjd6 function we compared the degree of sequence conservation across the aligned sequences and included in the alignment predicted tertiary structure elements of the protein.
After an individual's genetic variation is included in the alignment, particularly in the parent gene, many of these reads will align uniquely to the parent gene and be weighted accordingly by the EM algorithm.
Bin on x-axis represent the percentage of the hit's length included in the alignment to the Trinity transcript.
These latter were designed before knowing our results on enzyme diversity; thus, the sequences from OM60 clade were not included in the alignment used to construct the primers.
Included in the alignment are channels from the eight major classes of K+-selective channels from a wide variety of species, displaying varied rectification, gating, and activation properties.
All sequenced codon positions were included in the alignment, for introns and exons in arsB; however, every site containing gaps or missing data was then eliminated from the dataset.
A human TTV sequence was included in the alignment as outgroup (accession no. AB041007).
Selected HIV-1 subtypes/CRFs of geographical importance were also included in the alignment.
Only sequences in the rebuilt set were used, neither the native starting sequence, nor the intermediate random sequences were included in the alignment.
Stop codons and triplets that were affected by 1bp or 2bp deletions in a respective ortholog were also deleted in all other sequences included in the alignment.
