We did not find orthologous human or rat sequences in the databases.
Since the wild rat sequences were quiet divergent from the inbred population we did not include these wild rat sequences in the neutrality tests.
Firstly, mouse H2-Dd falls among rat sequences in the α3 domain analysis but clusters with the other mouse class Ia molecules for the ROARS.
Search was performed for all CNSs in the TRAM database, separately for the human and the rat sequence, resulting in identification of 1679998 vertebrate motif instances in the human and 1601216 in the rat.
No differences were found between the SHR and WKY strains, although both were found to contain non-coding sequence differences from the Brown Norway Rat sequence available in the Rat Genome Database (see Table 2).
Dahl S and R rats' sequences will be compared to each other and to the Rattus Norvegicus (Brown Norway rat) sequence readily available in the Rat Genome Database.
We scored a sequence as having a new TE if the mouse sequence contained a TE that was absent in rat and the genomic alignment had a gap in the rat sequence that matched the length of TE sequence in mouse, and vice versa.
Primer sequences for rat Tpoh, Aanat, and Hiomt have been previously published by our group [ 18], while specific primers assays for leptin receptor isoform b (Ob-Rb), Icer, and Rpl37a were designed from rat sequences available in the GenBank and are presented in Table 1.
The rat IAPs are similar in the sequence composition to both the human and mouse IAPs and to the rat sequences available in the public GenBank database (AF190020, AF081503, and AF033366).
Anti-mouse DGK α was raised against a peptide recognizing amino acids 602 615 in the rat sequence.
