Practice question
Question
Which enzyme is used in SAGE to remove ~12 bp fragments?
Explanation
SAGE generates short positional tags that serve as identifiers for transcripts. After cDNA synthesis on oligo(dT) beads and cleavage with anchoring enzyme NlaIII, adaptors containing recognition sites for the tagging enzyme are ligated. BsmFI is a type IIS restriction endonuclease that cleaves 10/14 bases downstream of its recognition site, releasing fragments containing approximately 10 to 14 base pair tags. These released tags are ligated into ditags for concatemerization and sequencing. AluI and EcoP151 have different roles, with EcoP151 used in CAGE, not classical SAGE tag release.