HinP1I restriction site and cut
HinP1I recognises GCGC and cuts G^CG_C, 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 | GCGC |
|---|---|
| Site length | 4 bases |
| Cut | G^CG_C |
| Ends | a 2-base 5′ overhang (CG) |
| REBASE entry | HinP1I 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) | 17 | 17 | 3, 106, 236, 257, 588, 653, 681, 714, 984, 1,051, 1,151, 1,325, 1,434, 1,827, 1,920, 2,257, 2,589 |
| pBR322 (J01749.1, 4,361 bp) | 31 | 31 | 101, 233, 261, 414, 435, 495, 549, 701, 776, 816, 947, 1,206, 1,357, 1,419, 1,455, 1,645, 1,728, 2,074, 2,177, 2,207, 2,348, 2,381, 2,651, 2,718, 2,818, 2,992, 3,101, 3,494, 3,587, 3,924, 4,256 |
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.