Complete nucleotide sequence of chicken Ovex1 and predicted translation products (second part). Nucleotides are numbered on the left, from the most 5' cap site of the mRNA as position +1. The genomic sequence preceding the start of transcription is taken from the chicken genome draft assembly (galGal3). The 5' and 3' imperfect direct repeats are indicated by dashed underlines. Sequences identified as GGLTR11 and CR1-Y4 by RepeatMasker are on a gray background. The TATA box and polyadenylation signals (AATAAA and ATTAAA) are underlined. SD and SA indicate the splice donor and acceptor sites. The conceptual translation of Gag, Pol and ORF3 is given under the nucleotide sequence, and amino-acid positions indicated on the right. Putative translation start codons are boxed. Conserved motifs are underlined: the Gag nuclear localization signals (NLS), leucine zipper motif and major homology region (MHR). In Pro, the active site is underlined. In RT, position of the usually conserved aspartate residues is indicated in bold underlined characters. In the integrase, amino acids involved in the zinc-binding finger are in bold characters and residues of the degenerated DD35E motif bold and underlined. In the ORF3 protein, potential N-glycosylation sites are in bold letters, potential cleavage sites indicated by arrows, and the transmembrane domain underlined. In the 3' UTR, the 13-base polypurine tract is doubly underlined. The position of the SSH cDNA fragment is indicated by a double arrow and its RsaI terminal sites (GTAC) printed in bold characters.