Figure 1

The position, length and orientation of primers and probes used in the bovine leukemia virus (BLV)-CoCoMo-qPCR method. Labeled arrows indicate the orientation and length of each primer. The black filled box indicates the probe annealing position. (A) The proviral structure of BLV in the BLV cell line FLK-BLV subclone pBLV913, complete genome [DDBJ: EF600696]. It contains two LTR regions at nucleotide positions 1-531 and 8190-8720. Lowercase labels indicate these LTR regions. The upper number shows the position of the 5' LTR and the lower number shows the position of the 3'LTR. Both LTRs include the U3, R and U5 regions. A triplicate 21-bp motif known as the Tax-responsive element (TRE) is present in the U3 region of the 5' LTR. The target region for amplification was in the U3 and R region, and the TaqMan probe for detecting the PCR product was from the R region. (B) The schematic outline of the bovine major histocompatibility complex (BoLA)-DRA gene (upper) and its cDNA clone MR1 [DDBJ: D37956] (lower). Exons are shown as open boxes. The numbers indicate the numbering of the nucleotide sequence of MR1. 5'UT, 5'-untranslated region; SP, signal sequence; α1, first domain; α 2, second domain; CP, connecting peptide; TM, transmembrane domain; CY, cytoplasmic domain; 3'UT, 3-untranslated region. The target regions for amplification and for binding of the TaqMan probe to detect the PCR product are in exon 4.