Table 2.

Restriction enzymes that cleave at specific sites and leave variable sticky ends

Restriction enzymeRestriction sitesNo. of sticky endsCutting frequencyaTheoretical end redundancebActual no. of restriction sitesc (% with nonunique ends)
MVVZVEBVFPMGHH6CJTGEV
BglIGCCNNNN↓NGGC34,096 (8,640 ± 23,266)262,1441 (0)32 (38)198 (ND)3 (0)8 (0)19 (26)57 (79)1 (0)
CGGN↑NNNNCCG
BstXICCANNNNN↓NTGG44,0961,048,5763 (0)31 (6)80 (41)16 (13)103 (ND)33 (12)135 (ND)3 (0)
GGTN↑NNNNNACC
SfiIGGCCNNNN↓NGGCC365,5364,194,30402 (0)68 (62)002 (0)00
CCGGN↑NNNNCCGG
SapIGCTCTTCN↓NNN316,3841,048,5762 (0)11 (18)34 (35)10 (60)27 (30)14 (29)220 (ND)4 (0)
CGAGAAGNNNN↑
EcoRIG↓AATTC04,0964,096315157174522837
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.