Fig. 1
From: A novel Betaretrovirus discovered in cattle with neurological disease and encephalitis
The bovine retrovirus CH15 proviral genome, sequencing strategy, and long terminal repeat (LTR) characteristics. A The coding-complete BoRV CH15 genome was determined by high-throughput sequencing (HTS) and Sanger sequencing. With 3' rapid amplification of cDNA ends (RACE), the LTR was sequenced to the redundant (R) region. With an HTS read pair overspanning the proviral 5' end and mapping to the Bos taurus genome, the missing bases of the 5' LTR could be determined. Because the LTRs have an identical sequence, the full-length proviral 3' LTR also could be determined. Green arrow-boxes represent the open reading frames of the group-specific antigen (gag), protease (pro), reverse transriptase, RNase H and integrase (pol), and envelope (env) proteins. Numbers represent bases in the viral genome. Purple, orange, and blue boxes depict the unique 3' (U3), R, and unique 5' (U5) regions of the LTRs, respectively. B Gray arrow-boxes represent the flanking regions of the LTRs: the primer-binding site (PBS) and polypurine tract (PPT). Pink boxes represent regulatory elements in the U3 region, the TATA-box (TATA) and the poly(A) signal (poly(A)). Inverted repeats (IR) are depicted by red triangles