Patent ID: 6849400

Claim:
A method for detecting a fusion nucleic acid comprising the steps of: a) providing a sample containing a first single-stranded fusion nucleic acid comprising a bcr-abl splice junction site; b) contacting under nucleic acid amplification conditions: the first single-stranded fusion nucleic acid, a first primer which hybridizes to the fusion nucleic acid at a first primer binding site of SEQ ID NO:22 located 3′ to the splice junction site, and at least one enzyme having nucleic acid polymerase activity; c) amplifying the fusion nucleic acid in a single isothermal nucleic acid amplification reaction using the first primer to produce a plurality of second nucleic acid strands complementary to at least a portion of the first single-stranded fusion nucleic acid that contains the bcr-abl splice junction site, wherein each second nucleic acid strand comprises: a complementary splice junction site, a first probe binding site located 3′ to and not overlapping the complementary splice junction site, and a second probe binding site located 5′ to and not overlapping the complementary splice junction site; d) hybridizing the second nucleic acid strands with an oligonucleotide probe under hybridization conditions in which the probe hybridizes to the first or second probe binding site, thereby forming a probe; target hybrid; and e) detecting the probe:target hybrid as an indication of the presence of the fusion nucleic add in the sample.