ApaI
GGGCC▾C3′ overhang (4)
ApaI is a 6 bp-recognition restriction enzyme. It runs best in rCutSmart at 37°C.
NEB buffer activity
| Buffer | % Activity |
|---|---|
| rNEBuffer 1.1 | 25% |
| rNEBuffer 2.1 | 25% |
| rNEBuffer 3.1 | 0% |
| rCutSmartbest | 100% |
- Incubation
- 37°C
- Heat inactivation
- 65°C, 20 min
- Star activity
- None
- Methylation blocked
- Dcm, CpG
GGGCCC. Incubate at 37°C (NEB's current R0114 formulation — the classic 25°C figure is outdated). Blocked by overlapping Dcm and CpG methylation.
Find ApaI sites in your own sequence
Paste a sequence below and this scans it for every ApaI recognition site — the same engine behind the full Restriction Sites tool, scoped to just this one enzyme.
Enzymes with ends compatible with ApaI
ApaI leaves a 4 nt 3′ GGCC overhang. None of the other 48 enzymes in the restriction enzyme table leaves an end that can be ligated to an ApaI end.
Frequently asked questions
What does ApaI recognize?
ApaI recognizes the 6 bp sequence GGGCCC (5′→3′), cutting the top strand between position 5 and 6 within the site to leave a 3′ overhang of 4 bases.
What buffer should I use for ApaI?
rCutSmart gives the highest activity (incubate at 37°C).
Does ApaI have star activity?
No documented star activity under standard reaction conditions.
Is ApaI blocked by DNA methylation?
Yes — blocked by Dcm, CpG methylation. Use methylation-free template (e.g. a dam⁻/dcm⁻ strain) if this matters for your digest.
Can I heat-inactivate ApaI?
Yes — 65°C for 20 minutes.