Helo there,
I have a t(9;22) fusion transcript where I know that the fusion gene on the 3' end is the ABL1 gene and I want to find out what is the partner gene on the 5' end. I know that using RACE PCR is the typical strategy of investigating such cases, but I had this idea that I would like to know if its feasible from the experts.
The idea is to use RNA-seq library preparation kit to add adaptors to my transcript and then sequence it using sanger sequencing rather than NGS using a forward primer complementary to the 5' adaptor and a reverse primer specific to a sequence in the ABL1 gene on the 3' end.
My questions are:
Is this too naive to think about?
If it is doable, which kit would be ideal?
I have a t(9;22) fusion transcript where I know that the fusion gene on the 3' end is the ABL1 gene and I want to find out what is the partner gene on the 5' end. I know that using RACE PCR is the typical strategy of investigating such cases, but I had this idea that I would like to know if its feasible from the experts.
The idea is to use RNA-seq library preparation kit to add adaptors to my transcript and then sequence it using sanger sequencing rather than NGS using a forward primer complementary to the 5' adaptor and a reverse primer specific to a sequence in the ABL1 gene on the 3' end.
My questions are:
Is this too naive to think about?
If it is doable, which kit would be ideal?
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