Replacement circle-seq of mouse bone marrow
Excision circles were sequenced using an adapted VDJseq protocol. We used nested VH framework-3 primer pools for the single cycle run-offs, followed by the first PCR step of the VDJseq protocol. Sequences shown in Supplementary table 1d. These targeted VH2-2,2-3,2-6,2-6-8,5-2,5-4,5-6,5-12,1-11,1-26,1-81,3-1,3-6. The run-off annealing temperature was changed to 56deg., and the PCR1 annealing temperature to 60deg, with 12 or 13 cycles depending on starting DNA amounts.