Which site of NDV NP gene is cut by BamHI and XhoI? - (Nov/08/2005 )
Currently, I am using BamHI and XhoI to cut Newcastle Disease Virus nucleocapsid gene,the gene sequence is as followed :
1 atgtcttccg tattcgatga atacgagcag ctcctcgctg ctcagactcg ccccaatgga
61 gctcacggag ggggagagag agggagcact ttaagagttg aggtcccagt attcactctt
121 aacagtgacg atccagaaga tagatggaat tttgcggtat tctgtcttcg gattgctgtt
181 agcgaggacg ccaacaaacc gctcaggcaa ggtgctctca tatccctcct gtgctcccat
241 tctcaagtga tgaggaacca tgttgccctt gcaggaaaac agaatgaggc tacactgact
301 gttcttgaga tcgatggttt taccagcagc gtgcctcagt tcaacaacag gagtggggtg
361 tctgaggaga gagcacagag attcatggtg atagcagggt ctctccctcg ggcgtgcagt
421 aacggtactc cgttcgtcac ggctggggtt gaagatgatg caccagaaga tatcactgat
481 actctggaaa gaatcctgtc tatccaggct caggtatggg tcacagtagc gaaggccatg
541 actgcatatg agacagcaga tgagtcggaa acaagaagaa tcaataagta catgcagcaa
601 ggcagagtcc agaagaagta catcctccac cctgtatgca ggagtgcaat tcaactcaca
661 atcagacatt ctctggcagt ccgcattttc ttagttagcg agcttaagag aggccgcaat
721 acggcaggtg ggagctccac gtattacaac ttagtagggg atgtagactc atacatcagg
781 aacaccggac ttactgcatt cttccttaca ctcaaatatg gaattaatac caagacatca
841 gccctagcac tcagcagcct cacaggcgat atccaaaaga tgaagcagct catgcgttta
901 tatcggatga agggagaaaa tgcgccgtac atgacattgc taggtgacag tgatcagatg
961 agctttgcac cggctgagta tgcacagctt tattcttttg ccatgggcat ggcatcagtc
1021 ttagataaag gaactggcaa ataccaattc gccagagact tcatgagcac atcattctgg
1081 agactcgggg tggagtatgc tcaggctcag gggagtagca tcaacgaaga catggctgct
1141 gagctaaaac taaccccggc agcaagaagg ggcctggcag ctgctgccca acgagtgtct
1201 gaggaaactg gcagcgtgga tattcctact caacaagccg gggtcctcac tgggctcagc
1261 gatggaggcc cccgagcctc tcagggtgga tcgaacaagt cgcaagggca accagatgcc
1321 ggagatgggg agacccaatt cttggatttg atgagagcag tggcgaacag catgcgagaa
1381 gcgccaaact ccgcacagag caccacccac ccggaacccc ccccgactcc cgggccatca
1441 caagataacg acaccgactg ggggtattga
My lecturer suggested me to use BamHI and XhoI to cut this sequence in order to clone this gene into a plasmid. However, I could not find the restriction site of the enzymes (BamHI and XhoI) that I used in this sequence.
I would be more than happy if anyone could provide a free of charge website for me to locate the restriction site, or help me to locate the restriction site.
Thank you.
These are the sties that I found using a program called DNAStar (not free). These are all unique sites.
Sequence : seq.seq ( 1 > 1470 ) 44 Unique Sites
Enzymes : All 242 enzymes (No Filter), 127 Enzymes Cut
Settings : Linear, Certain Sites Only, Standard Genetic Code
715 AarI
764 AccI
703 AflII
1183 AlwNI
147 ApoI
824 AseI
951 BclI
863 BglI
1098 BpmI
740 BsaAI
188 BsaHI
784 BsaWI
442 BseYI
435 BsgI
88 BsmFI
796 BsmI
1061 BspHI
715 BspMI
201 BsrBI
934 BsrDI
969 BsrFI
1008 BstXI
1001 BtgI
1364 BtsI
311 ClaI
1098 Eco57MI
1384 HaeII
196 HgaI
765 Hpy8I
739 HpyCH4IV
545 MmeI
1006 MslI
1180 MspA1I
1001 NcoI
546 NdeI
1341 PflMI
1180 PvuII
1431 SmaI
1374 SphI
1001 StyI
716 TauI
742 TscI
140 XcmI
1429 XmaI
I hope it helps.
1 atgtcttccg tattcgatga atacgagcag ctcctcgctg ctcagactcg ccccaatgga
61 gctcacggag ggggagagag agggagcact ttaagagttg aggtcccagt attcactctt
121 aacagtgacg atccagaaga tagatggaat tttgcggtat tctgtcttcg gattgctgtt
181 agcgaggacg ccaacaaacc gctcaggcaa ggtgctctca tatccctcct gtgctcccat
241 tctcaagtga tgaggaacca tgttgccctt gcaggaaaac agaatgaggc tacactgact
301 gttcttgaga tcgatggttt taccagcagc gtgcctcagt tcaacaacag gagtggggtg
361 tctgaggaga gagcacagag attcatggtg atagcagggt ctctccctcg ggcgtgcagt
421 aacggtactc cgttcgtcac ggctggggtt gaagatgatg caccagaaga tatcactgat
481 actctggaaa gaatcctgtc tatccaggct caggtatggg tcacagtagc gaaggccatg
541 actgcatatg agacagcaga tgagtcggaa acaagaagaa tcaataagta catgcagcaa
601 ggcagagtcc agaagaagta catcctccac cctgtatgca ggagtgcaat tcaactcaca
661 atcagacatt ctctggcagt ccgcattttc ttagttagcg agcttaagag aggccgcaat
721 acggcaggtg ggagctccac gtattacaac ttagtagggg atgtagactc atacatcagg
781 aacaccggac ttactgcatt cttccttaca ctcaaatatg gaattaatac caagacatca
841 gccctagcac tcagcagcct cacaggcgat atccaaaaga tgaagcagct catgcgttta
901 tatcggatga agggagaaaa tgcgccgtac atgacattgc taggtgacag tgatcagatg
961 agctttgcac cggctgagta tgcacagctt tattcttttg ccatgggcat ggcatcagtc
1021 ttagataaag gaactggcaa ataccaattc gccagagact tcatgagcac atcattctgg
1081 agactcgggg tggagtatgc tcaggctcag gggagtagca tcaacgaaga catggctgct
1141 gagctaaaac taaccccggc agcaagaagg ggcctggcag ctgctgccca acgagtgtct
1201 gaggaaactg gcagcgtgga tattcctact caacaagccg gggtcctcac tgggctcagc
1261 gatggaggcc cccgagcctc tcagggtgga tcgaacaagt cgcaagggca accagatgcc
1321 ggagatgggg agacccaatt cttggatttg atgagagcag tggcgaacag catgcgagaa
1381 gcgccaaact ccgcacagag caccacccac ccggaacccc ccccgactcc cgggccatca
1441 caagataacg acaccgactg ggggtattga
My lecturer suggested me to use BamHI and XhoI to cut this sequence in order to clone this gene into a plasmid. However, I could not find the restriction site of the enzymes (BamHI and XhoI) that I used in this sequence.
I would be more than happy if anyone could provide a free of charge website for me to locate the restriction site, or help me to locate the restriction site.
Thank you.
hi
download pDRAW (http://www.acaclone.com/, download section) and after installation, click on "file" enter new sequence. You'll get your stuff.