Version 1.4
NCSA Computational Biology - TACG
Analyze a DNA Sequence for Restriction Enzyme Sites
hw6
Restriction Enzymes that DO NOT CUT in this sequence
AatII AccI AceIII AflII AflIII AhdI AluI
Alw26I ApaI ApaBI ApaLI ApoI AscI AvaI
AvaII AvrII BaeI BamHI BanI BanII BbsI
Bce83I BcefI BcgI BcgI BclI BfaI BfiI
BglI BglII BmgI BplI BpmI Bpu10I Bpu1102I
BsaI BsaAI BsaBI BsaHI BsaJI BsaWI BsaXI
BscGI BseRI BsgI BsiHKAI BslI BsmBI BsmFI
Bsp24I Bsp24I Bsp1286I BspEI BspGI BspLU11I BsrBI
BsrDI BsrFI BsrGI BssHII BssSI Bst1107I BstEII
BstXI BstYI Bsu36I Cac8I CjeI CjeI CjePI
CjePI ClaI DdeI DraI DraIII DrdI DrdII
DsaI EaeI EagI EarI EciI Eco47III Eco57I
EcoNI EcoO109I EcoRI EcoRII EcoRV FokI FseI
FspI GdiII HaeI HaeIII HgaI HgiEII Hin4I
HincII HindIII HpaI KpnI MaeIII MluI MmeI
MnlI MscI MslI MunI MwoI NarI NcoI
NdeI NgoAIV NheI NlaIV NotI NruI NsiI
NspI NspV PacI PflMI PinAI PleI PmeI
PmlI PpuMI PshAI Psp1406I PstI PvuI PvuII
RcaI RleAI RsaI RsrII SacII SalI SanDI
SapI Sau96I ScaI SexAI SfcI SfiI SgfI
SgrAI SimI SmaI SnaBI SpeI SphI SrfI
Sse8387I Sse8647I SspI SstI StuI StyI SunI
SwaI TaqII TaqII TatI ThaI Tsp45I Tsp509I
TspRI Tth111I Tth111II UbaDI VspI XbaI XcmI
XhoI XmnI
Total Number of Cuts per Restriction Enzyme
AatII 0 BsaHI 0 DraI 0 MslI 0 SexAI 0
AccI 0 BsaJI 0 DraIII 0 MspI 2 SfaNI 1
AceIII 0 BsaWI 0 DrdI 0 MspA1I 1 SfcI 0
AciI 2 BsaXI 0 DrdII 0 MunI 0 SfiI 0
AflII 0 BsbI 1 DsaI 0 MwoI 0 SgfI 0
AflIII 0 BscGI 0 EaeI 0 NarI 0 SgrAI 0
AhdI 0 BseRI 0 EagI 0 NciI 2 SimI 0
AluI 0 BsgI 0 EarI 0 NcoI 0 SmaI 0
AlwI 1 BsiEI 1 EciI 0 NdeI 0 SnaBI 0
Alw26I 0 BsiHKAI 0 Eco47III 0 NgoAIV 0 SpeI 0
AlwNI 1 BslI 0 Eco57I 0 NheI 0 SphI 0
ApaI 0 BsmI 1 EcoNI 0 NlaIII 1 SrfI 0
ApaBI 0 BsmBI 0 EcoO109I 0 NlaIV 0 Sse8387I 0
ApaLI 0 BsmFI 0 EcoRI 0 NotI 0 Sse8647I 0
ApoI 0 Bsp24I 0 EcoRII 0 NruI 0 SspI 0
AscI 0 Bsp24I 0 EcoRV 0 NsiI 0 SstI 0
AvaI 0 Bsp1286I 0 FauI 1 NspI 0 StuI 0
AvaII 0 BspEI 0 Fnu4HI 2 NspV 0 StyI 0
AvrII 0 BspGI 0 FokI 0 PacI 0 SunI 0
BaeI 0 BspLU11I 0 FseI 0 Pfl1108I 2 SwaI 0
BamHI 0 BspMI 1 FspI 0 PflMI 0 TaqI 2
BanI 0 BsrI 1 GdiII 0 PinAI 0 TaqII 0
BanII 0 BsrBI 0 HaeI 0 PleI 0 TaqII 0
BbsI 0 BsrDI 0 HaeII 1 PmeI 0 TatI 0
BbvI 1 BsrFI 0 HaeIII 0 PmlI 0 TauI 1
BccI 1 BsrGI 0 HgaI 0 PpuMI 0 TfiI 1
Bce83I 0 BssHII 0 HgiEII 0 PshAI 0 ThaI 0
BcefI 0 BssSI 0 HhaI 1 Psp1406I 0 TseI 1
BcgI 0 Bst1107I 0 Hin4I 0 PstI 0 Tsp45I 0
BcgI 0 BstEII 0 HincII 0 PvuI 0 Tsp4CI 1
BclI 0 BstXI 0 HindIII 0 PvuII 0 Tsp509I 0
BfaI 0 BstYI 0 HinfI 1 RcaI 0 TspRI 0
BfiI 0 Bsu36I 0 HpaI 0 RleAI 0 Tth111I 0
BglI 0 Cac8I 0 HphI 1 RsaI 0 Tth111II 0
BglII 0 CjeI 0 KpnI 0 RsrII 0 UbaDI 0
BmgI 0 CjeI 0 MaeII 4 SacII 0 VspI 0
BplI 0 CjePI 0 MaeIII 0 SalI 0 XbaI 0
BpmI 0 CjePI 0 MboII 1 SanDI 0 XcmI 0
Bpu10I 0 ClaI 0 MluI 0 SapI 0 XhoI 0
Bpu1102I 0 CviJI 2 MmeI 0 Sau96I 0 XmnI 0
BsaI 0 CviRI 3 MnlI 0 Sau3AI 3
BsaAI 0 DdeI 0 MscI 0 ScaI 0
BsaBI 0 DpnI 3 MseI 1 ScrFI 2
Cut Sites by Restriction Enzyme
AciI C'CG_C - 2 Cut(s)
44 234
AlwI GGATCnnnn'n_ - 1 Cut(s)
35
AlwNI CAG_nnn'CTG - 1 Cut(s)
213
BbvI GCAGCnnnnnnnn'nnnn_ - 1 Cut(s)
171
BccI CCATC - 1 Cut(s)
7
BsbI CAACAC - 1 Cut(s)
186
BsiEI CG_ry'CG - 1 Cut(s)
193
BsmI GAATG_Cn' - 1 Cut(s)
32
BspMI ACCTGCnnnn'nnnn_ - 1 Cut(s)
68
BsrI ACTG_Gn' - 1 Cut(s)
197
CviRI TG'CA - 3 Cut(s)
30 135 183
DpnI GA'TC - 3 Cut(s)
41 164 217
FauI CCCGCnnnn'nn_ - 1 Cut(s)
51
Fnu4HI GC'n_GC - 2 Cut(s)
181 234
HaeII r_GCGC'y - 1 Cut(s)
213
HhaI G_CG'C - 1 Cut(s)
212
HinfI G'AnT_C - 1 Cut(s)
152
HphI GGTGAnnnnnnn_n' - 1 Cut(s)
83
MaeII A'CG_T - 4 Cut(s)
15 127 141 174
MboII GAAGAnnnnnnn_n' - 1 Cut(s)
146
MseI T'TA_A - 1 Cut(s)
168
MspI C'CG_G - 2 Cut(s)
65 149
MspA1I CmG'CkG - 1 Cut(s)
46
NciI CC's_GG - 2 Cut(s)
65 149
NlaIII _CATG' - 1 Cut(s)
100
Pfl1108I TCGTAG - 2 Cut(s)
54 87
Sau3AI 'GATC_ - 3 Cut(s)
39 162 215
ScrFI CC'n_GG - 2 Cut(s)
65 149
SfaNI GCATCnnnnn'nnnn_ - 1 Cut(s)
144
TaqI T'CG_A - 2 Cut(s)
138 222
TauI GCsGC - 1 Cut(s)
234
TfiI G'AwT_C - 1 Cut(s)
152
TseI G'CwG_C - 1 Cut(s)
180
Tsp4CI AC_n'GT - 1 Cut(s)
194
Restriction Map of Sequence
AlwI AciI
CviRI Sau3AI MspA1I Pfl1108I
BccI MaeII BsmI DpnI FauI
\ \ \ \ \ \ \ \ \ \ \
1 aaaaccatcaaatacgttatgctggaatgcaacgaactgatcccgctgttctacgaaacc 60
ttttggtagtttatgcaatacgaccttacgttgcttgactagggcgacaagatgctttgg
^ * ^ * ^ * ^ * ^ * ^ *
K T I K Y V M L E C N E L I P L F Y E T
CviJI
MspI
ScrFI
NciI Pfl1108I
BspMI HphI NlaIII
\ \ \ \ \
61 tgcccggctggtgaaaacatctgctacgaaatgttcatggttgctaccccgaaagttccg 120
acgggccgaccacttttgtagacgatgctttacaagtaccaacgatggggctttcaaggc
^ * ^ * ^ * ^ * ^ * ^ *
C P A G E N I C Y E M F M V A T P K V P
MboII TfiI
MspI
MaeII ScrFI MseI
TaqI NciI Sau3AI BbvI TseI
MaeII CviRI SfaNI HinfI DpnI MaeII Fnu4HI
\ \ \ \ \ \ \ \ \ \ \ \ \ \\
121 tgcgaacgtggttgcatcgacgtttgcccggaatcttctctgatcgttaaatacgtttgc 180
acgcttgcaccaacgtagctgcaaacgggccttagaagagactagcaatttatgcaaacg
^ * ^ * ^ * ^ * ^ * ^ *
C E R G C I D V C P E S S L I V K Y V C
Sau3AI AciI
BsrI HhaI DpnI TauI
BsbI Tsp4CI HaeII Fnu4HI
CviRI BsiEI AlwNI TaqI CviJI
\ \ \\ \ \\ \ \ \ \\
181 tgcaacaccgaccgttgccagtaatccagcgcctgatctctcgaaataaaagccgcatt 240
acgttgtggctggcaacggtcattaggtcgcggactagagagctttattttcggcgtaa
^ * ^ * ^ * ^ * ^ * ^ *
C N T D R C Q Z S S A Z S L E I K A A
Ladder Map of Restriction Enzyme Cut Sites
20 40 60 80 100 120 140 160 180 200 220 240
: : : : : : : : : : : :
AciI -------------------------\-----------------------------------------------------------------------------------------------------------------\----
AlwI --------------------\---------------------------------------------------------------------------------------------------------------------------
AlwNI -------------------------------------------------------------------------------------------------------------------------------/----------------
BbvI ------------------------------------------------------------------------------------------------------\-----------------------------------------
: : : : : : : : : : : :
BccI ---|--------------------------------------------------------------------------------------------------------------------------------------------
BsbI ---------------------------------------------------------------------------------------------------------------|--------------------------------
BsiEI -------------------------------------------------------------------------------------------------------------------/----------------------------
BsmI ------------------/-----------------------------------------------------------------------------------------------------------------------------
: : : : : : : : : : : :
BspMI ----------------------------------------\-------------------------------------------------------------------------------------------------------
BsrI ---------------------------------------------------------------------------------------------------------------------/--------------------------
CviRI -----------------|--------------------------------------------------------------|----------------------------|----------------------------------
DpnI ------------------------|------------------------------------------------------------------------|-------------------------------|--------------
: : : : : : : : : : : :
FauI ------------------------------\-----------------------------------------------------------------------------------------------------------------
Fnu4HI ------------------------------------------------------------------------------------------------------------\------------------------------\----
HaeII -------------------------------------------------------------------------------------------------------------------------------/----------------
HhaI ------------------------------------------------------------------------------------------------------------------------------/-----------------
: : : : : : : : : : : :
HinfI ------------------------------------------------------------------------------------------\-----------------------------------------------------
HphI -------------------------------------------------/----------------------------------------------------------------------------------------------
MaeII --------\------------------------------------------------------------------\--------\------------------\----------------------------------------
MboII ---------------------------------------------------------------------------------------/--------------------------------------------------------
20 40 60 80 100 120 140 160 180 200 220 240
: : : : : : : : : : : :
MseI ----------------------------------------------------------------------------------------------------\-------------------------------------------
MspI --------------------------------------\-------------------------------------------------\-------------------------------------------------------
MspA1I ---------------------------|--------------------------------------------------------------------------------------------------------------------
NciI --------------------------------------\-------------------------------------------------\-------------------------------------------------------