A LINE element from the olive flounder (Paralichthys olivaceus) shows similarity to the Maui non-LTR retrotransposon = 넙치(Paralichthys olivaceus)의 LINE 발굴과 이와 Maui non-LTR과의 연관성 연구

Abstract

The LINE element, designated Dodalim, has been newly characterized in the olive flounder (Paralichthys olivaceus). The 4,960-bp consensus sequence comprises a 265-bp 5′ untranslated region, as well as a 3,974-bp coding region followed by a 721-bp 3′ untranslated region, which contains the 3′ terminal repeat sequence, TTGAA. The coding region possesses two ORFs (Open Reading Frames), separated by a 41-bp region of non-coding DNA. The predicted product of ORF1 (from position 266 to 1,150) is believed to be a nucleic acid binding protein which contains a zinc finger motif. The ORF2 (from position 1,192 to 4,239) encodes a protein composed of 1,015 amino acids and includes an N-terminal endonuclease domain, a conserved reverse transcriptase domain, and a C-terminal domain of unknown function. Sequence comparisons of the predicted translation products of the ORF2 indicate that Dodalim is closely related to the Fugu Maui non-LTR retrotransposon. The results of our phylogenetic analysis suggest that the LINE ORF2 of fish diverged, in ancient times, from the common ancestor with other chordate, such as avians, reptiles, cephalochords and mammals.