TABLE 2.
Restriction enzymes that cleave at specific sites and leave variable sticky ends
| Restriction enzyme | Restriction sites | No. of sticky ends | Cutting frequencya | Theoretical end redundanceb | Actual no. of restriction sitesc (% with nonunique ends)
|
|||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| MV | VZV | EBV | FP | MG | HH6 | CJ | TGEV | |||||
| BglI | GCCNNNN↓NGGC | 3 | 4,096 (8,640 ± 23,266) | 262,144 | 1 (0) | 32 (38) | 198 (ND) | 3 (0) | 8 (0) | 19 (26) | 57 (79) | 1 (0) |
| CGGN↑NNNNCCG | ||||||||||||
| BstXI | CCANNNNN↓NTGG | 4 | 4,096 | 1,048,576 | 3 (0) | 31 (6) | 80 (41) | 16 (13) | 103 (ND) | 33 (12) | 135 (ND) | 3 (0) |
| GGTN↑NNNNNACC | ||||||||||||
| SfiI | GGCCNNNN↓NGGCC | 3 | 65,536 | 4,194,304 | 0 | 2 (0) | 68 (62) | 0 | 0 | 2 (0) | 0 | 0 |
| CCGGN↑NNNNCCGG | ||||||||||||
| SapI | GCTCTTCN↓NNN | 3 | 16,384 | 1,048,576 | 2 (0) | 11 (18) | 34 (35) | 10 (60) | 27 (30) | 14 (29) | 220 (ND) | 4 (0) |
| CGAGAAGNNNN↑ | ||||||||||||
| EcoRI | G↓AATTC | 0 | 4,096 | 4,096 | 3 | 15 | 15 | 71 | 74 | 52 | 283 | 7 |
| CTTAA↑G | ||||||||||||
a
Mean distance between BglI sites (in base pairs) in the genomes of these organisms (fragment sizes ranged from 9 to 191,414 bp).
b
Frequency of end compatibility with a random sequence.
c
MV, Marburg virus (19,104-bp genome; NC001608); VZV, varicella-zoster virus (124,884-bp genome; X04370); EBV, Epstein-Barr virus (172,281-bp genome; V01555); FP, fowl pox virus (288,539-bp genome; AF198100); MG, M. genitalium (580,074-bp genome; NC000908); HH6, human herpesvirus 6B strain Z29 (162,114-bp genome; AF157706); CJ, C. jejuni (1,641,481-bp genome; NC002163); TGEV, 28,586-bp genome (3). ND, not done.