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Expression pattern analysis of transcribed HERV sequences is complicated by recombination-3

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posted on 2011-12-31, 07:44 authored by Aline Flockerzi, Jochen Maydt, Oliver Frank, Alessia Ruggieri, Esther Maldener, Wolfgang Seifarth, Patrik Medstrand, Thomas Lengauer, Andreas Meyerhans, Christine Leib-Mösch, Eckart Meese, Jens Mayer

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Taken from "Expression pattern analysis of transcribed HERV sequences is complicated by recombination"

http://www.retrovirology.com/content/4/1/39

Retrovirology 2007;4():39-39.

Published online 6 Jun 2007

PMCID:PMC1904241.

genome. The majority of cDNAs displayed between zero and a few differences to the best match, and were thus assignable to specific HML-2 loci. A minority of cDNAs displayed a greater number of dissimilarities to the best match and were thus not assignable with confidence to specific HML-2 loci. HERV-KX sequences were defined as displaying 18 or more nucleotide differences to the best matching HML-2 locus. (B) Sequence divergence of HERV-KX sequences in comparison to selected HML-2 reference sequences from the human genome, depicted as a neighbour joining-tree of the absolute number of nucleotide differences between sequences. For the sake of clarity, phylogenetically more distant HML-2 reference sequences were not included in the tree, as they were less similar to HERV-KX sequences than the reference sequences included in the tree. Proviral reference sequences are given as "xx_xxx" (see text). Positions with gaps were excluded in pairwise sequence comparisons.