Internal region of ERV1 endogenous retrovirus, HERVH subfamily
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The long terminal repeat associated with HERVH is LTR7. The putative env gene, consisting of about 1800 base pairs, has two open reading frames interrupted by a termination codon. The amino acid sequence of this region shows significant homology to those of other retroviral envelope proteins and contains eight potential glycosylation sites. It is estimated that there are about 100 copies of RTVL-H elements containing the env gene per haploid human genome. Note that this estimate is distinct from simply tallying all hits (long and short) from this model.
Presence of env genes in members of the RTVL-H family of human endogenous retrovirus-like elements.
Hirose Y, Takamatsu M, Harada F;
Virology 1993;192:52-61 Pubmed
Number of matches to this model that meet the "Gathering" threshold and more stringent "Trusted" threshold. For each threshold, two numbers are shown: (1) the number of matches to this model after removing redundant hits to other models ("non-redundant"), and (2) the total number of matches above threshold, including those with better scoring matches to other models ("all hits").
The model is 7713 positions long. The average length of non-redundant hits to the model is 1222.9. This table shows the number of hits above score thresholds:
|non-redundant||all hits||non-redundant||all hits|
External Database Links
- Repbase : HERVH [Requires Repbase registration]