Briefly, first introns were divided into two regions, conserved first introns and non-conserved first introns by the criteria of Phastcons ≥ 0.5, and the chromatin signals and regulatory signals described in the main text were overlaid into each region, generating a 2×2 contingency table.
NvTimeout, like vertebrate and insect Timeout genes, has poorly conserved first Period-interacting and cytoplasmic localization domains, and lacks a conserved nuclear localization signal (Figure S2).
A yellow form, where the blue pigment is lost and yellow and red pigments are conserved, first appeared in the 1950s in aviculture.
The physicochemical properties of the peptide between the conserved first and last amino acid positions were determined using ProtParam.
Sequenced reads of the expected size were selected and trimmed to remove adaptor sequences and the (conserved) first 10 nt of the fragment (Additional file 1).
The structure of TtNikM2 reveals that the highly conserved first 9-residue loop inserts into the center of TtNikM2 and forms a series of hydrogen bonds with the surrounding residues.
Nevertheless, both functions of the MRN complex are likely to be conserved: first, germlines that are deficient in mre-11 or rad-50 typically show 12 univalents at diakinesis due to the lack of chiasmata, in line with the role of the MRN complex in meiotic DSB formation (Chin and Villeneuve 2001; Hayashi et al. 2007).
The short, highly conserved second exon is the ortholog of the conserved third P. falciparum exon.
Of the five highly conserved regions within intron 1 of the locus, insertions of transposons are found in or near the four conserved noncoding regions but not in the most highly conserved fifth region.
The oscillator deletion causes a frameshift resulting in loss of the highly conserved third cytoplasmic loop and fourth transmembrane domain of the protein.
Despite finding the conserved second-coordination sphere Glu/Asp important in catalysis, no mechanistic insight was gained from these studies.
