MspI restriction site and cut
MspI recognises CCGG and cuts C^CG_G, leaving a 2-base 5′ overhang (CG).
In this notation, read on the top strand from five prime to three prime, ^ marks where the top strand is cut and _ where the bottom strand is cut. N stands for any base; Ns before or after the site are flanking bases, not part of it.
At a glance
| Recognition site | CCGG |
|---|---|
| Site length | 4 bases |
| Cut | C^CG_G |
| Ends | a 2-base 5′ overhang (CG) |
| REBASE entry | MspI on REBASE |
Sites in pUC19 and pBR322
| Vector | Sites | Cut under dam and dcm methylation | Cuts after base (top strand) |
|---|---|---|---|
| pUC19 (L09137.2, 2,686 bp) | 13 | 13 | 48, 82, 413, 524, 1,013, 1,160, 1,186, 1,376, 1,780, 1,814, 1,881, 1,991, 2,233 |
| pBR322 (J01749.1, 4,361 bp) | 26 | 26 | 161, 170, 387, 402, 411, 534, 694, 770, 930, 1,020, 1,258, 1,284, 1,485, 1,665, 1,812, 2,119, 2,153, 2,680, 2,827, 2,853, 3,043, 3,447, 3,481, 3,548, 3,658, 3,900 |
Counts are for the GenBank record named, as a circle, in that record's numbering. The third column counts the sites cut in DNA with dam and dcm methylation (the Drybench Plasmid default); any other site is blocked, or its outcome is not known. The positions list every recognition site, cut or not. A vendor's map, or your own stock, may differ from this record.
The same question is open below in Drybench Plasmid. Change the enzymes, the host's methylation or the vector there; nothing you do here is saved unless you save it.