MnlI restriction site and cut
MnlI recognises CCTC and cuts CCTCNNNNNN_N^N, leaving a 1-base 3′ overhang whose bases are not fixed by the recognition site.
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 | CCTC |
|---|---|
| Site length | 4 bases |
| Cut | CCTCNNNNNN_N^N |
| Ends | a 1-base 3′ overhang whose bases are not fixed by the recognition site |
| REBASE entry | MnlI 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 | 39, 299, 431, 655, 705, 914, 988, 1,238, 1,638, 1,719, 1,866, 2,072, 2,666 |
| pBR322 (J01749.1, 4,361 bp) | 26 | 26 | 125, 185, 389, 608, 790, 875, 974, 1,177, 1,238, 1,276, 1,303, 1,472, 1,803, 1,861, 1,899, 2,080, 2,110, 2,372, 2,581, 2,655, 2,905, 3,305, 3,386, 3,533, 3,739, 4,333 |
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.