BIOTEKNOLOGI

OKTAPIANA KOSMITA
140410110073

_______________________________________________
Bacillus subtilis 16S rRNA gene for 16S ribosomal RNA, strain Lactipan
GenBank: AJ277905.1
FASTA Graphics
Go to:
LOCUS
DEFINITION
ACCESSION
VERSION
KEYWORDS
SOURCE
ORGANISM
REFERENCE
AUTHORS
TITLE
JOURNAL
PUBMED
REFERENCE
AUTHORS

AJ277905
1452 bp
DNA
linear
BCT 05-JAN-2001
Bacillus subtilis 16S rRNA gene for 16S ribosomal RNA, strain
Lactipan.
AJ277905
AJ277905.1 GI:12049573
16S ribosomal RNA; 16S rRNA gene.
Bacillus subtilis
Bacillus subtilis
Bacteria; Firmicutes; Bacilli; Bacillales; Bacillaceae; Bacillus.
1
Hoa,N.T., Baccigalupi,L., Huxham,A., Smertenko,A., Van,P.H.,
Ammendola,S., Ricca,E. and Cutting,A.S.
Characterization of Bacillus species used for oral bacteriotherapy
and bacterioprophylaxis of gastrointestinal disorders
Appl. Environ. Microbiol. 66 (12), 5241-5247 (2000)
11097897
2 (bases 1 to 1452)
Ricca,E.

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

TITLE
JOURNAL

Direct Submission
Submitted (11-MAY-2000) Ricca E., General and Environmental
Physiology, University 'Federico II' of Napoli, via Mezzocannone
16, 80134, ITALY
FEATURES
Location/Qualifiers
source
1..1452
/organism="Bacillus subtilis"
/mol_type="genomic DNA"
/strain="Lactipan"
/db_xref="taxon:1423"
gene
1..1452
/gene="16S rRNA"
rRNA
1..1452
/gene="16S rRNA"
/product="16S ribosomal RNA"
ORIGIN
1 atcgagcgga cagatgggag cttgctccct gatgttagcg gcggacgggt gagtaacacg
61 tgggtaacct gcctgtaaga ctgggataac tccgggaaac cggggctaat accggatggt
121 tgtttgaacc gcatggttca aacataaaag gtggcttcgg ctaccactta cagatggacc
181 cgcggcgcat tagctagttg gtgaggtaac ggctcaccaa ggcaacgatg cgtagccgac
241 ctgagagggt gatcggccac actgggactg agacacggcc cagactccta cgggaggcag
301 cagtagggaa tcttccgcaa tggacgaaag tctgacggag caacgccgcg tgagtgatga
361 aagttttcgg atcgtaaagc tctgttgtta gggaagaaca agtaccgttc gaatagggcg
421 gtaccttgac ggtacctaac cagaaagcca cggctaacta cgtgccagca gccgcggtaa
481 tacgtaggtg gcaagcgttg tccggaatta ttgggcgtaa agggctcgca ggcggtttct

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

541
601
661
721
781
841
901
961
1021
1081
1141
1201
1261
1321
1381
1441

taagtctgat
gagtgcagaa
gaacaccagt
gggagcgaac
tagggggttt
acggtcgcaa
tggtttaatt
agagatagga
gtgtcgtgag
cattcagttg
cgtcaaatca
agggcagcga
gtctgcaact
tgaatacgtt
gaagtcggtg
gaatcgtaac

gtgaaagccc
gaggagagtg
ggcgaaggcg
aggattagat
cccgcccctt
gactgaaact
cgaagcaacg
cgtccccttc
atgttgggtt
ggcaatttta
tcatgcccct
aaccgcgagg
cgactgcgtg
cccgggcctt
aggtaacctt
aa

ccggctcaac
gaattccacg
actctctggt
accctggtag
agtgctgcag
caaaggaatt
cgaagaacct
gggggcagag
aagtcccgca
aggtgactgc
tatgacctgg
ttaagccaat
aagctggaat
gtacacaccg
ttaggagcca

cggggagggt
tgtagcggtg
ctgtaactga
tccacgccgt
ctaacgcatt
gacgggggcc
taccaggtct
tgacaggtgg
acgagcgcaa
cggtgacaaa
gctacacacg
cccacaaatc
cgctagtaat
cccgtcacac
gccgccgaag

cattggaaac
aaatgcgtag
cgctgaagag
aaacgatgag
aagcactccg
cgcacaagcg
tgacatcctc
tgcatggttg
cccttgatct
ccggaggaag
tgctacaatg
tgttctcagt
cgcggatcag
cacgagagtt
gtgggacaga

tggggaactt
agatgtggag
cgaaagcgtg
tgctaagtgt
cctggggagt
gtggagcatg
tgacaatcct
tcgtcagctc
tagttgccag
gtggggatga
gacagaacaa
tcggatcgca
catgccgcgg
tgtaacaccc
tgattggggt

//

Bacillus subtilis 16S rRNA gene for 16S ribosomal RNA, strain Lactipan
GenBank: AJ277905.1
GenBank Graphics
>gi|12049573|emb|AJ277905.1| Bacillus subtilis 16S rRNA gene for 16S ribosomal RNA,
strain Lactipan
ATCGAGCGGACAGATGGGAGCTTGCTCCCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGGTAACCT

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

GCCTGTAAGACTGGGATAACTCCGGGAAACCGGGGCTAATACCGGATGGTTGTTTGAACCGCATGGTTCA
AACATAAAAGGTGGCTTCGGCTACCACTTACAGATGGACCCGCGGCGCATTAGCTAGTTGGTGAGGTAAC
GGCTCACCAAGGCAACGATGCGTAGCCGACCTGAGAGGGTGATCGGCCACACTGGGACTGAGACACGGCC
CAGACTCCTACGGGAGGCAGCAGTAGGGAATCTTCCGCAATGGACGAAAGTCTGACGGAGCAACGCCGCG
TGAGTGATGAAAGTTTTCGGATCGTAAAGCTCTGTTGTTAGGGAAGAACAAGTACCGTTCGAATAGGGCG
GTACCTTGACGGTACCTAACCAGAAAGCCACGGCTAACTACGTGCCAGCAGCCGCGGTAATACGTAGGTG
GCAAGCGTTGTCCGGAATTATTGGGCGTAAAGGGCTCGCAGGCGGTTTCTTAAGTCTGATGTGAAAGCCC
CCGGCTCAACCGGGGAGGGTCATTGGAAACTGGGGAACTTGAGTGCAGAAGAGGAGAGTGGAATTCCACG
TGTAGCGGTGAAATGCGTAGAGATGTGGAGGAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGA
CGCTGAAGAGCGAAAGCGTGGGGAGCGAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGAG
TGCTAAGTGTTAGGGGGTTTCCCGCCCCTTAGTGCTGCAGCTAACGCATTAAGCACTCCGCCTGGGGAGT
ACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGAGCATGTGGTTTAATT
CGAAGCAACGCGAAGAACCTTACCAGGTCTTGACATCCTCTGACAATCCTAGAGATAGGACGTCCCCTTC
GGGGGCAGAGTGACAGGTGGTGCATGGTTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCA
ACGAGCGCAACCCTTGATCTTAGTTGCCAGCATTCAGTTGGGCAATTTTAAGGTGACTGCCGGTGACAAA
CCGGAGGAAGGTGGGGATGACGTCAAATCATCATGCCCCTTATGACCTGGGCTACACACGTGCTACAATG
GACAGAACAAAGGGCAGCGAAACCGCGAGGTTAAGCCAATCCCACAAATCTGTTCTCAGTTCGGATCGCA
GTCTGCAACTCGACTGCGTGAAGCTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCGGTGAATACGTT
CCCGGGCCTTGTACACACCGCCCGTCACACCACGAGAGTTTGTAACACCCGAAGTCGGTGAGGTAACCTT
TTAGGAGCCAGCCGCCGAAGGTGGGACAGATGATTGGGGTGAATCGTAACAA
bs-lacipten
1452 base pairs

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

Graphic map | Table by enzyme name

AccBSI

Eco72I BstEII
Cac8I
BsoFI
AflIII BbrPI Eco91I
TthHB8I
AluI
ItaI
HphI MaeII PspEI
BspMI
atcgagcggacagatgggagcttgctccctgatgttagcggcggacgggtgagtaacacgtgggtaacctgcctg base pairs
tagctcgcctgtctaccctcgaacgagggactacaatcgccgcctgcccactcattgtgcacccattggacggac 1 to 75
TaqI
BsrBI
CviJI
Fsp4HI
MaeIII PmaCI EcoO65I
AciI
AciI
BsaAI BstPI
PmlI MaeIII
BstD102I

ScrFI BsiSI MspR9I HpaII

Bse1I
BsiSI
MspI ScrFI MspI
Hsp92II
BsrI
MspI MspR9I HpaII BsaWI BstF5I
AciI
taagactgggataactccgggaaaccggggctaataccggatggttgtttgaaccgcatggttcaaacataaaag base pairs
attctgaccctattgaggccctttggccccgattatggcctaccaacaaacttggcgtaccaagtttgtattttc 76 to 150
BseNI
HapII BcnI BsaJI CviJI
FokI
NlaIII
BsrSI
HpaII
HapII NciI HapII
NciI
BseDI BcnI BsiSI
SinI AvaII DsaI BstUI SacII FauI CfoI CviJI StyI
Sau96I PspN4I ThaI Bsh1236I KspI Hin6I MaeI Eco13
CviJI CviJI
Bme18I HgiEI BstDSI ItaI Sfr303I HspAI BfaI CviJI
gtggcttcggctaccacttacagatggacccgcggcgcattagctagttggtgaggtaacggctcaccaaggcaa base pairs
caccgaagccgatggtgaatgtctacctgggcgccgcgtaatcgatcaaccactccattgccgagtggttccgtt 151 to 225
Eco47I NlaIV AccII MspA1I AciI HinP1I AluI MnlI ErhI
AsuI AspS9I BsaJI MvnI Fsp4HI SstII HhaI MaeIII BseDI
Cfr13I BseDI NspBII Cfr42I BsoFI AspLEI HphI BssT1I
BsaJI
Sau3AI EaeI
TspRI BsmFI Cfr13I HinfI
BsoFI
0I HphI
MboI HphI BsuRI
DdeI Alw26I CviJI
BsiYI
EcoT14I CviJI DdeI
MnlI DpnII CviJI BsrI BstDEI Sau96I PalI
EcoNI MnlI
cgatgcgtagccgacctgagagggtgatcggccacactgggactgagacacggcccagactcctacgggaggcag base pairs
gctacgcatcggctggactctcccactagccggtgtgaccctgactctgtgccgggtctgaggatgccctccgtc 226 to 300
SfaNI
BstDEI
Kzo9I DpnI PalI BsrSI
BsmAI HaeIII PleI Bsc4I ItaI

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073
Bsp143I HaeIII BseNI
NdeII CfrI
Bse1I

AsuI BsuRI
AspS9I

BslI Fsp4HI

ThaI
Sau3AI
BsoFI Bsh1236I
MboI DpnI
TfiI
MboII BsrDI
ItaI MvnI
Asp700I DpnII
cagtagggaatcttccgcaatggacgaaagtctgacggagcaacgccgcgtgagtgatgaaagttttcggatcgt base pairs
gtcatcccttagaaggcgttacctgctttcagactgcctcgttgcggcgcactcactactttcaaaagcctagca 301 to 375
HinfI
AciI
PshAI
Fsp4HI AciI
XmnI Kzo9I
AccII
Bsp143I
BbvI
BstUI
NdeII
Bst71I

TaqI BstBI BanI Csp6I KpnI BshNI KpnI BsaJI

CviJI
RsaI SfuI Csp45I BshNI NlaIV BanI Csp6I
DsaI
AluI
MboII AfaI Bpu14I
Acc65I AciI Acc65I AfaI
CviJI
aaagctctgttgttagggaagaacaagtaccgttcgaatagggcggtaccttgacggtacctaaccagaaagcca base pairs
tttcgagacaacaatcccttcttgttcatggcaagcttatcccgccatggaactgccatggattggtctttcggt 376 to 450
AclWI
Csp6I TthHB8I
Eco64I AfaI Eco64I NlaIV
BseDI
Bsp119I
Asp718I PspN4I AccB1I PspN4I
AlwI
LspI NspV AccB1I RsaI Asp718I RsaI
BstDSI
CviJI BstDSI Bsh1236I Eco105I BsiMI MspI Sse9I
Fsp4HI BsaJI MvnI AciI BsaAI
Bsp13I BsiSI
CviJI MaeII Cac8I Bst71I NspBII SacII SstII Cac8I BspEI HpaII
MwoI
cggctaactacgtgccagcagccgcggtaatacgtaggtggcaagcgttgtccggaattattgggcgtaaagggc base pairs
gccgattgatgcacggtcgtcggcgccattatgcatccaccgttcgcaacaggccttaataacccgcatttcccg 451 to 525
BsaAI
ItaI BseDI ThaI Cfr42I MaeII
MroI AccIII TspEI
CviJI
BsoFI DsaI BstUI Sfr303I BstSNI BseAI Kpn2I Tsp509I
BbvI AccII MspA1I KspI SnaBI BsaWI HapII
Bsp1286I
Vha464I
MspI BcnI BsiSI MspR9I
BanII
AciI AflII
BsaJI BsiSI HapII NciI
Bse1I
SduI BmyI
BspTI MseI
CviJI NciI
MspI ScrFI
BsrI
tcgcaggcggtttcttaagtctgatgtgaaagcccccggctcaaccggggagggtcattggaaactggggaactt base pairs

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073
agcgtccgccaaagaattcagactacactttcgggggccgagttggcccctcccagtaacctttgaccccttgaa 526 to 600
Cac8I
BfrI Tru1I
BseDI MspR9I BseDI BcnI
BseNI
Eco24I
MspCI Tru9I
ScrFI HpaII BsaJI MnlI
BsrSI
FriOI
Bst98I
HapII CviJI HpaII
MnlI
AcsI
Eco72I
TspRI
Ksp632I Sse9I
PmaCI
Bse1I
BsgI Eam1104I ApoI AflIII
AciI
MnlI
BsrI
gagtgcagaagaggagagtggaattccacgtgtagcggtgaaatgcgtagagatgtggaggaacaccagtggcga base pairs
ctcacgtcttctcctctcaccttaaggtgcacatcgccactttacgcatctctacacctccttgtggtcaccgct 601 to 675
MboII
EcoRI MaeII BbrPI HphI
BseNI
EarI
TspEI
BsaAI
BsrSI
BseRI Tsp509I PmlI
EarI
MvaI
Eam1104I
BsaJI Bst2UI
HinfI DrdI MaeIII
HgaI Eco57I
MwoI
EcoRII BstOI
aggcgactctctggtctgtaactgacgctgaagagcgaaagcgtggggagcgaacaggattagataccctggtag base pairs
tccgctgagagaccagacattgactgcgacttctcgctttcgcacccctcgcttgtcctaatctatgggaccatc 676 to 750
PleI
MboII
BseDI MspR9I
Ksp632I
ScrFI
SapI
BstNI
SfcI PstI MwoI
DdeI
Fsp4HI Bst71I MseI
DdeI
AciI
BstSFI CviJI Tru1I
tccacgccgtaaacgatgagtgctaagtgttagggggtttcccgccccttagtgctgcagctaacgcattaagca base pairs
aggtgcggcatttgctactcacgattcacaatcccccaaagggcggggaatcacgacgtcgattgcgtaattcgt 751 to 825
BstDEI
FauI
ItaI BbvI BbvI
BstDEI BsoFI AluI
Tru9I
Bst71I
ScrFI Csp6I BstMCI
BseDI Bst2UI Bsh1285I

Tsp509I

Bsp120I HaeIII Eco24I FauI

Sau96I NlaIV SduI FriOI

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073
EcoRII MspR9I BsiEI
Sse9I
DraII PspOMI PalI Bsp1286I
ctccgcctggggagtacggtcgcaagactgaaactcaaaggaattgacgggggcccgcacaagcggtggagcatg base pairs
gaggcggacccctcatgccagcgttctgactttgagtttccttaactgcccccgggcgtgttcgccacctcgtac 826 to 900
AciI BstNI RsaI
TspEI
EcoO109I CviJI BanII AciI
BsaJI BstOI
BsaOI
AsuI AspS9I BsuRI Cac8I
MvaI
AfaI
Cfr13I PspN4I ApaI BmyI
Tru9I SfuI LspI BstUI
BstNI
Hsp92I
AciI MseI Bpu14I BstBI MvnI
ScrFI
MnlI
AcyI
Tru1I TthHB8I AccII MboII SexAI Bst2UI
BstF5I
BfaI
Hin1I
tggtttaattcgaagcaacgcgaagaaccttaccaggtcttgacatcctctgacaatcctagagataggacgtcc base pairs
accaaattaagcttcgttgcgcttcttggaatggtccagaactgtaggagactgttaggatctctatcctgcagg 901 to 975
NspI Sse9I Bsp119I ThaI
EcoRII BstOI
FokI
MaeI
Msp17I
NlaIII TspEI TaqI NspV Bsh1236I
MvaI
MaeII
Hsp92II Tsp509I Csp45I
MspR9I
BbiII
BsiYI
BsaHI
CviJI
Tru9I
FauI
AatII
MaeIII
NlaIII BcgI
BsiI
Tru1I
BsmFI
ccttcgggggcagagtgacaggtggtgcatggttgtcgtcagctcgtgtcgtgagatgttgggttaagtcccgca base pairs
ggaagcccccgtctcactgtccaccacgtaccaacagcagtcgagcacagcactctacaacccaattcagggcgt 976 to 1050
Bsc4I
Tsp45I
Hsp92II
AluI BssSI
MseI
AciI
BsmFI
BslI
CfoI
NdeII BstDEI
MseI
Cfr10I Tsp45I
HspAI
Bsp143I
BsmI
Tsp509I
HphI HapII HphI BsiSI
MwoI HhaI Kzo9I DdeI
Cac8I XcmI
Sse9I
MaeIII BsrFI BsiSI MspI
acgagcgcaacccttgatcttagttgccagcattcagttgggcaattttaaggtgactgccggtgacaaaccgga base pairs
tgctcgcgttgggaactagaatcaacggtcgtaagtcaacccgttaaaattccactgacggccactgtttggcct 1051 to 1125
HinP1I
MboI DpnI
BsaMI
TspEI
Tsp45I BssAI HpaII HapII
Hin6I
Sau3AI
Mva1269I
Tru1I
Bse118I
BsaWI
AspLEI DpnII
Tru9I
MspI MaeIII HpaII

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073
BslI

AcyI BbiII
MvaI CviJI Eco72I
Hin1I AatII
BsaJI BstOI MaeII
Bsc4I
BstF5I BsaHI
NlaIII
EcoRII MspR9I PmaCI
ggaaggtggggatgacgtcaaatcatcatgccccttatgacctgggctacacacgtgctacaatggacagaacaa base pairs
ccttccacccctactgcagtttagtagtacggggaatactggacccgatgtgtgcacgatgttacctgtcttgtt 1126 to 1200
MnlI
FokI Hsp92I
Hsp92II
BseDI Bst2UI BsaAI
BsiYI
Msp17I
ScrFI
AflIII BbrPI
MaeII
BstNI
PmlI
BbvI
Bsh1236I
NdeII AlwI
BsoFI
BstUI MseI
Bsp143I
ItaI
AccII Tru1I
DdeI
Kzo9I AclWI
TthHB8I
agggcagcgaaaccgcgaggttaagccaatcccacaaatctgttctcagttcggatcgcagtctgcaactcgact base pairs
tcccgtcgctttggcgctccaattcggttagggtgtttagacaagagtcaagcctagcgtcagacgttgagctga 1201 to 1275
Fsp4HI
ThaI MnlI CviJI
BstDEI MboI DpnI
TaqI
Bst71I MvnI Tru9I
Sau3AI
AciI
DpnII
Bsh1236I AciI NlaIII BsoFI NspBII SacII SstII XmaI
TfiI MaeI
BstUI NdeII AclWI BbuI BseDI ThaI Cfr42I Asp700I
AluI MwoI
AccII Sau3AI AlwI Hsp92II BstDSI MspA1I KspI AvaI
gcgtgaagctggaatcgctagtaatcgcggatcagcatgccgcggtgaatacgttcccgggccttgtacacaccg base pairs
cgcacttcgaccttagcgatcattagcgcctagtcgtacggcgccacttatgcaagggcccggaacatgtgtggc 1276 to 1350
CviJI
BfaI
ThaI MboI DpnI PaeI Fsp4HI AccII Bsh1236I XmnI PspAI
HinfI
MvnI Bsp143I Cac8I NspI DsaI BstUI Sfr303I MaeII
Kzo9I DpnII SphI ItaI BsaJI MvnI AciI HphI BsoBI
Eco88I BsiSI Sau96I PalI RsaI BssSI
MaeIII
CviJI
Ama87I HapII PspALI CviJI Csp6I BsiI BsiYI BstPI
CviJI
AciI BslI
BsaJI MspI BcnI Cfr13I BsrGI AciI Bsc4I PspEI MnlI
NlaIV ItaI
Bsc4I
cccgtcacaccacgagagtttgtaacacccgaagtcggtgaggtaaccttttaggagccagccgccgaaggtggg base pairs
gggcagtgtggtgctctcaaacattgtgggcttcagccactccattggaaaatcctcggtcggcggcttccaccc 1351 to 1425
BcoI MspR9I AsuI BsuRI AfaI Tsp45I HphI Eco91I
PspN4I BsoFI
BsiYI
BseDI ScrFI HpaII AspS9I SspBI MaeIII BslI BstEII
Cac8I

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073
Cfr9I NciI SmaI HaeIII Bsp1407I MaeIII EcoO65I
HphI
BsmFI
TfiI
acagatgattggggtgaatcgtaacaa
tgtctactaaccccacttagcattgtt
HinfI
MaeIII

Fsp4HI

base pairs
1426 to 1452

Table by Enzyme Name

Enzy me
name
AatII
Acc65I
AccB1I
AccBSI
AccII
AccIII
AciI
AclWI
AcsI
AcyI
AfaI

No.
cuts
2
2
2
1
7
1
20
3
1
2
5

Positions
of sites
973 1143
420 431
420 431
9
182 348 474 920 1215 1302 1317
501
9 41 132 183 318 349 421 475 535
638 795 831 883 891 1049 1216
1305 1318 1351 1415
373 1257 1308
621
970 1140
403 422 433 840 1342

Recognition
sequence
gacgt/c
g/gtacc
g/gyrcc
gagcgg
cg/cg
t/ccgga
ccgc

More
More
More
More
More
More
More

info
info
info
info
info
info
info

ggatc
r/aatty
gr/cgyc
gt/ac

More
More
More
More

info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

AflII
AflIII
AluI
Alw26I
AlwI
Ama87I
ApaI
ApoI
Asp700I
Asp718I
AspLEI
AspS9I
AsuI
AvaI
AvaII
BanI
BanII
BbiII
BbrPI
BbuI
BbvI
BcgI
BcnI
BcoI
BfaI
BfrI
Bme18I
BmyI

1
3
6
1
3
1
1
1
2
2
2
4
4
1
1
2
2
2
3
1
5
1
5
1
3
1
1
2

539
56 628 1176
20 193 379 810 1017 1283
274
373 1257 1308
1331
880
621
363 1326
420 431
187 1057
176 277 876 1334
176 277 876 1334
1331
176
420 431
526 880
970 1140
59 629 1179
1314
301 472 808 811 1208
1013
93 101 561 571 1332
1331
194 959 1293
539
176
526 880

c/ttaag
a/crygt
ag/ct
gtctc
ggatc
c/ycgrg
gggcc/c
r/aatty
gaann/nnttc
g/gtacc
gcg/c
g/gncc
g/gncc
c/ycgrg
g/gwcc
g/gyrcc
grgcy/c
gr/cgyc
cac/gtg
gcatg/c
gcagc
cgannnnnntgc
cc/sgg
c/ycgrg
c/tag
c/ttaag
g/gwcc
gdgch/c

More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

Bpu14I
BsaAI
BsaHI
BsaJI

2
5
2
12

BsaMI
BsaOI
BsaWI
Bsc4I
Bse118I
Bse1I
BseAI
BseDI

1
1
3
5
1
4
1
12

BseNI
BseRI
BsgI
Bsh1236I
Bsh1285I
BshNI
BsiEI
BsiI
BsiMI
BsiSI

4
1
1
7
1
2
1
2
1
9

BsiYI
BslI
BsmAI

5
5
1

409 910
59 461 483 629 1179
970 1140
100 180 217 448 472 559 570 742
831 1166 1315 1331
1085
845
111 501 1120
292 979 1126 1383 1420
1109
84 265 593 670
501
100 180 217 448 472 559 570 742
831 1166 1315 1331
84 265 593 670
616
608
182 348 474 920 1215 1302 1317
845
420 431
845
1023 1366
501
92 100 112 502 561 570 1110 1121
1332
293 980 1127 1384 1421
293 980 1127 1384 1421
274

tt/cgaa
yac/gtr
gr/cgyc
c/cnngg

More
More
More
More

info
info
info
info

gaatgc
cgry/cg
w/ccggw
ccnnnn/nnngg
r/ccggy
actgg
t/ccgga
c/cnngg

More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info

actgg
gaggag
gtgcag
cg/cg
cgry/cg
g/gyrcc
cgry/cg
ctcgtg
t/ccgga
c/cgg

More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info

ccnnnnn/nngg
ccnnnnn/nngg
gtctc

More info
More info
More info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

BsmFI
BsmI
BsoBI
BsoFI

4
1
1
9

Bsp119I
Bsp120I
Bsp1286I
Bsp13I
Bsp1407I
Bsp143I
BspEI
BspMI
BspTI
BsrBI
BsrDI
BsrFI
BsrGI
BsrI
BsrSI
BssAI
BssSI
BssT1I
Bst2UI
Bst71I
Bst98I
BstBI
BstD102I

2
1
2
1
1
5
1
1
1
1
1
1
1
4
4
1
2
1
4
5
1
2
1

268 976 1047 1427

gggac
1085
gaatgc
1331
c/ycgrg
39 183 298 346 469 805 1205 1315 gc/ngc
1412
409 910
tt/cgaa
876
g/ggccc
526 880
gdgch/c
501
t/ccgga
1340
t/gtaca
250 369 1065 1253 1304
/gatc
501
t/ccgga
72
acctgc
539
c/ttaag
9
gagcgg
322
gcaatg
1109
r/ccggy
1340
t/gtaca
84 265 593 670
actgg
84 265 593 670
actgg
1109
r/ccggy
1023 1366
ctcgtg
217
c/cwwgg
744 832 934 1167
cc/wgg
301 472 808 811 1208
gcagc
539
c/ttaag
409 910
tt/cgaa
9
gagcgg

More
More
More
More

info
info
info
info

More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

BstDEI
BstDSI
BstEII
BstF5I
BstMCI
BstNI
BstOI
BstPI
BstSFI
BstSNI
BstUI
BsuRI
Cac8I

6
4
2
3
1
4
4
2
1
1
7
4
8

CfoI
Cfr10I
Cfr13I
Cfr42I
Cfr9I
CfrI
Csp45I
Csp6I
CviJI

2
1
4
3
1
1
2
5
25

DdeI
DpnI

6
5

241 268 773 798 1069 1245

180 448 472 1315
63 1392
118 948 1139
845
744 832 934 1167
744 832 934 1167
63 1392
805
483
182 348 474 920 1215 1302 1317
256 278 878 1336
22 466 493 526 880 1078 1312
1409
187 1057
1109
176 277 876 1334
183 475 1318
1331
254
409 910
402 421 432 839 1341
20 105 154 160 193 212 235 256
278 379 447 453 471 524 557 564
810 878 1017 1171 1225 1283 1336
1407 1411
241 268 773 798 1069 1245
252 371 1067 1255 1306

c/tnag
c/crygg
g/gtnacc
ggatg
cgry/cg
cc/wgg
cc/wgg
g/gtnacc
c/tryag
tac/gta
cg/cg
gg/cc
gcn/ngc

More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info

gcg/c
r/ccggy
g/gncc
ccgc/gg
c/ccggg
y/ggccr
tt/cgaa
g/tac
rg/cy

More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info

c/tnag
ga/tc

More info
More info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

DpnII
DraII
DrdI
DsaI
EaeI
Eam1104I
EarI
Eco105I
Eco130I
Eco24I
Eco47I
Eco57I
Eco64I
Eco72I
Eco88I
Eco91I
EcoNI
EcoO109I
EcoO65I
EcoRI
EcoRII
EcoT14I
ErhI
FauI
FokI
FriOI
Fsp4HI

5
1
1
4
1
2
2
1
1
2
1
1
2
3
1
2
1
1
2
1
4
1
1
4
3
2
9

250 369 1065 1253 1304

876
686
180 448 472 1315
254
613 710
613 710
483
217
526 880
176
708
420 431
59 629 1179
1331
63 1392
291
876
63 1392
621
742 830 932 1165
217
217
183 795 883 1049
118 948 1139
526 880
39 183 298 346 469 805 1205 1315
1412

/gatc
rg/gnccy
gacnnnn/nngtc
c/crygg
y/ggccr
ctcttc
ctcttc
tac/gta
c/cwwgg
grgcy/c
g/gwcc
ctgaag
g/gyrcc
cac/gtg
c/ycgrg
g/gtnacc
cctnn/nnnagg
rg/gnccy
g/gtnacc
g/aattc
/ccwgg
c/cwwgg
c/cwwgg
cccgc
ggatg
grgcy/c
gc/ngc

More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

HaeIII
HapII

4
9

HgaI
HgiEI
HhaI
Hin1I
Hin6I
HinP1I
HinfI
HpaII

1
1
2
2
2
2
5
9

HphI

10

Hsp92I
Hsp92II
HspAI
ItaI

2
5
2
9

Kpn2I
KpnI
Ksp632I
KspI
Kzo9I
LspI
MaeI
MaeII

1
2
2
3
5
2
3
8

256 278 878 1336

92 100 112 502 561 570 1110 1121
1332
703
176
187 1057
970 1140
185 1055
185 1055
283 308 680 1287 1441
92 100 112 502 561 570 1110 1121
1332
52 204 218 252 641 1106 1116
1323 1391 1442
970 1140
135 900 1006 1155 1314
185 1055
39 183 298 346 469 805 1205 1315
1412
501
424 435
613 710
183 475 1318
250 369 1065 1253 1304
409 910
194 959 1293
58 460 482 628 970 1140 1178
1326

gg/cc
c/cgg

More info
More info

gacgc
g/gwcc
gcg/c
gr/cgyc
g/cgc
g/cgc
g/antc
c/cgg

More
More
More
More
More
More
More
More

ggtga

More info

gr/cgyc
catg/
g/cgc
gc/ngc

More
More
More
More

info
info
info
info

t/ccgga
ggtac/c
ctcttc
ccgc/gg
/gatc
tt/cgaa
c/tag
a/cgt

More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info

info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

MaeIII

11

MboI
MboII
MnlI

5
5
10

MroI
MseI
Msp17I
MspA1I
MspCI
MspI

1
6
2
3
1
9

MspR9I

Mva1269I
MvaI
MvnI
MwoI
NciI
NdeII
NlaIII
NlaIV
NspBII
NspI
NspV
PaeI
PalI

1
4
7
5
5
5
5
5
3
2
2
1
4

52 63 205 692 989 1102 1112 1353

1371 1392 1445
250 369 1065 1253 1304
315 397 612 709 926
206 248 297 578 614 661 950 1127
1220 1393
501
540 819 905 1039 1098 1221
970 1140
182 474 1317
539
92 100 112 502 561 570 1110 1121
1332
93 101 561 571 744 832 934 1167
1332
1085
744 832 934 1167
182 348 474 920 1215 1302 1317
521 722 813 1054 1289
93 101 561 571 1332
250 369 1065 1253 1304
135 900 1006 1155 1314
178 422 433 877 1406
182 474 1317
900 1314
409 910
1314
256 278 878 1336

/gtnac

More info

/gatc
gaaga
cctc

More info
More info
More info

t/ccgga
t/taa
gr/cgyc
cmg/ckg
c/ttaag
c/cgg

More
More
More
More
More
More

cc/ngg

More info

gaatgc
cc/wgg
cg/cg
gcnnnnn/nngc
cc/sgg
/gatc
catg/
ggn/ncc
cmg/ckg
rcatg/y
tt/cgaa
gcatg/c
gg/cc

More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info

info
info
info
info
info
info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

PleI
PmaCI
PmlI
PshAI
PspAI
PspALI
PspEI
PspN4I
PspOMI
PstI
RsaI
SacII
SapI
Sau3AI
Sau96I
ScrFI

2
3
3
1
1
1
2
5
1
1
5
3
1
5
4
9

SduI
SexAI
SfaNI
SfcI
Sfr303I
SfuI
SinI
SmaI
SnaBI
SphI
Sse9I

2
1
1
1
3
2
1
1
1
1
5

287 684
59 629 1179
59 629 1179
327
1331
1333
63 1392
178 422 433 877 1406
876
809
403 422 433 840 1342
183 475 1318
711
250 369 1065 1253 1304
176 277 876 1334
93 101 561 571 744 832 934 1167
1332
526 880
932
231
805
183 475 1318
409 910
176
1333
483
1314
505 621 866 906 1093

gagtc
cac/gtg
cac/gtg
gacnn/nngtc
c/ccggg
ccc/ggg
g/gtnacc
ggn/ncc
g/ggccc
ctgca/g
gt/ac
ccgc/gg
gctcttc
/gatc
g/gncc
cc/ngg

More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info

gdgch/c
a/ccwggt
gcatc
c/tryag
ccgc/gg
tt/cgaa
g/gwcc
ccc/ggg
tac/gta
gcatg/c
/aatt

More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

SspBI
SstII
StyI
TaqI
TfiI
ThaI
Tru1I
Tru9I
Tsp45I
Tsp509I
TspEI
TspRI
TthHB8I
Vha464I
XcmI
XmaI
XmnI

1
3
1
4
3
7
6
6
4
5
5
2
4
1
1
1
2

1340
183 475 1318
217
2 409 910 1270
308 1287 1441
182 348 474 920 1215 1302 1317
540 819 905 1039 1098 1221
540 819 905 1039 1098 1221
989 1102 1112 1353
505 621 866 906 1093
505 621 866 906 1093
264 671
2 409 910 1270
539
1084
1331
363 1326

t/gtaca
ccgc/gg
c/cwwgg
t/cga
g/awtc
cg/cg
t/taa
t/taa
/gtsac
/aatt
/aatt
cagtg
t/cga
c/ttaag
ccannnnn/nnnntgg
c/ccggg
gaann/nnttc

More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More
More

info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info
info

The following endonucleases were selected but don't cut this sequence:
AatI, Acc113I, Acc16I, AccB7I, AccI, AclNI, AfeI, AgeI, AhdI, Alw21I, Alw44I,
AlwNI, AocI, Aor51HI, ApaLI, AscI, AseI, AsnI, AspEI, AspHI, AspI, AtsI,
AviII, AvrII, BalI, BamHI, BanIII, BbeI, BbsI, Bbv12I, Bbv16II, BclI, BglI,
BglII, BlnI, BlpI, BpiI, BpmI, Bpu1102I, BpuAI, Bsa29I, BsaBI, BsaI, BscI,
Bse21I, Bse8I, BseCI, BsePI, Bsh1365I, BsiHKAI, BsiWI, BsmBI, Bsp106I,
Bsp143II, Bsp1720I, Bsp19I, Bsp68I, BspCI, BspDI, BspHI, BspLU11I, BspXI,
BsrBRI, BssHII, Bst1107I, BstH2I, BstI, BstX2I, BstXI, BstYI, BstZI, Bsu15I,
Bsu36I, CciNI, CelII, ClaI, CpoI, CspI, CvnI, DraI, DraIII, EagI, Eam1105I,

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

Ecl136II, EclHKI, EclXI, Eco147I, Eco255I, Eco31I, Eco32I, Eco47III, Eco52I,

Eco81I, EcoICRI, EcoRV, EcoT22I, EheI, Esp1396I, Esp3I, FauNDI, FbaI, FseI,
FspI, GsuI, HaeII, HincII, HindII, HindIII, HpaI, KasI, Ksp22I, MamI, MfeI,
MflI, MluI, MluNI, Mph1103I, MroNI, MscI, MslI, MunI, NaeI, NarI, NcoI,
NdeI, NgoAIV, NgoMI, NheI, NotI, NruI, NsiI, PacI, PaeR7I, Pfl23II, PflMI,
PinAI, Ple19I, Pme55I, PmeI, Ppu10I, PpuMI, PshBI, Psp124BI, Psp1406I,
Psp5II, PspLI, PstNHI, PvuI, PvuII, RcaI, RsrII, SacI, SalI, SbfI, ScaI,
SfiI, Sfr274I, SgfI, SgrAI, SmiI, SpeI, SplI, SrfI, Sse8387I, SseBI, SspI,
SstI, StuI, SunI, SwaI, Tth111I, Van91I, VneI, VspI, XbaI, XhoI, XhoII,
XmaIII, Zsp2I
Primer3 Output

No mispriming library specified

No internal oligo mishyb library specified
Using 1-based sequence positions
OLIGO
start len
tm
gc%
LEFT PRIMER
20
20
58.98
55.00
RIGHT PRIMER
182
20
59.10
55.00
INTERNAL OLIGO
66
20
60.24
55.00
SEQUENCE SIZE: 1452
INCLUDED REGION SIZE: 1452

any_th
0.00
0.00
5.39

3'_th hairpin seq

0.00
0.00 GCTTGCTCCCTGATGTTAGC
0.00
0.00 CGGGTCCATCTGTAAGTGGT
0.00
38.29 AACCTGCCTGTAAGACTGGG

PRODUCT SIZE: 163, PAIR ANY_TH COMPL: 0.00, PAIR 3'_TH COMPL: 0.00
TARGETS (start len

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

1 ATCGAGCGGACAGATGGGAGCTTGCTCCCTGATGTTAGCGGCGGACGGGTGAGTAACACG
>>>>>>>>>>>>>>>>>>>>
61 TGGGTAACCTGCCTGTAAGACTGGGATAACTCCGGGAAACCGGGGCTAATACCGGATGGT
^^^^^^^^^^^^^^^^^^^^ ************
121 TGTTTGAACCGCATGGTTCAAACATAAAAGGTGGCTTCGGCTACCACTTACAGATGGACC
<<<<<<<<<<<<<<<<<<
181 CGCGGCGCATTAGCTAGTTGGTGAGGTAACGGCTCACCAAGGCAACGATGCGTAGCCGAC
<<
241 CTGAGAGGGTGATCGGCCACACTGGGACTGAGACACGGCCCAGACTCCTACGGGAGGCAG
301 CAGTAGGGAATCTTCCGCAATGGACGAAAGTCTGACGGAGCAACGCCGCGTGAGTGATGA
361 AAGTTTTCGGATCGTAAAGCTCTGTTGTTAGGGAAGAACAAGTACCGTTCGAATAGGGCG
421 GTACCTTGACGGTACCTAACCAGAAAGCCACGGCTAACTACGTGCCAGCAGCCGCGGTAA
481 TACGTAGGTGGCAAGCGTTGTCCGGAATTATTGGGCGTAAAGGGCTCGCAGGCGGTTTCT
541 TAAGTCTGATGTGAAAGCCCCCGGCTCAACCGGGGAGGGTCATTGGAAACTGGGGAACTT

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

601 GAGTGCAGAAGAGGAGAGTGGAATTCCACGTGTAGCGGTGAAATGCGTAGAGATGTGGAG
661 GAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGACGCTGAAGAGCGAAAGCGTG
721 GGGAGCGAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGAGTGCTAAGTGT
781 TAGGGGGTTTCCCGCCCCTTAGTGCTGCAGCTAACGCATTAAGCACTCCGCCTGGGGAGT
841 ACGGTCGCAAGACTGAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGAGCATG
901 TGGTTTAATTCGAAGCAACGCGAAGAACCTTACCAGGTCTTGACATCCTCTGACAATCCT
961 AGAGATAGGACGTCCCCTTCGGGGGCAGAGTGACAGGTGGTGCATGGTTGTCGTCAGCTC
1021 GTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGATCTTAGTTGCCAG
*************
1081 CATTCAGTTGGGCAATTTTAAGGTGACTGCCGGTGACAAACCGGAGGAAGGTGGGGATGA

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

1141 CGTCAAATCATCATGCCCCTTATGACCTGGGCTACACACGTGCTACAATGGACAGAACAA
1201 AGGGCAGCGAAACCGCGAGGTTAAGCCAATCCCACAAATCTGTTCTCAGTTCGGATCGCA
1261 GTCTGCAACTCGACTGCGTGAAGCTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCGG
1321 TGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACACCACGAGAGTTTGTAACACCC
1381 GAAGTCGGTGAGGTAACCTTTTAGGAGCCAGCCGCCGAAGGTGGGACAGATGATTGGGGT
1441 GAATCGTAACAA
KEYS (in order of precedence):
****** target
>>>>>> left primer
<<<<<< right primer
^^^^^^ internal oligo
ADDITIONAL OLIGOS
start

len

tm

gc%

any_th

3'_th hairpin seq

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

1 LEFT PRIMER
914
20
58.85
AGCAACGCGAAGAACCTTAC
RIGHT PRIMER
1148
20
59.01
ATTTGACGTCATCCCCACCT
INTERNAL OLIGO
1077
20
60.03
CCAGCATTCAGTTGGGCAAT
PRODUCT SIZE: 235, PAIR ANY_TH COMPL:

50.00

10.39

0.00

0.00

50.00

20.29

0.00

0.00

50.00

0.00

0.00

44.96

2 LEFT PRIMER
889
20
58.47
CGGTGGAGCATGTGGTTTAA
RIGHT PRIMER
1096
20
59.10
ATTGCCCAACTGAATGCTGG
INTERNAL OLIGO
962
20
59.96
GAGATAGGACGTCCCCTTCG
PRODUCT SIZE: 208, PAIR ANY_TH COMPL:

50.00

0.00

0.00

0.00

50.00

0.00

0.00

0.00

60.00

15.71

0.00

38.26

3 LEFT PRIMER
909
20
59.77
TTCGAAGCAACGCGAAGAAC
RIGHT PRIMER
1116
20
59.24
TCACCGGCAGTCACCTTAAA
INTERNAL OLIGO
1077
20
60.03
CCAGCATTCAGTTGGGCAAT
PRODUCT SIZE: 208, PAIR ANY_TH COMPL:

50.00

4.37

0.00

0.00

50.00

0.00

0.00

0.00

50.00

0.00

0.00

44.96

4 LEFT PRIMER
986
CAGAGTGACAGGTGGTGCAT
RIGHT PRIMER
1170
CCAGGTCATAAGGGGCATGA

0.00, PAIR 3'_TH COMPL: 0.00

0.00, PAIR 3'_TH COMPL: 0.00

0.00, PAIR 3'_TH COMPL: 0.00

20

59.96

55.00

0.00

0.00

0.00

20

59.15

55.00

0.00

0.00

0.00

BIOTEKNOLOGI
OKTAPIANA KOSMITA
140410110073

INTERNAL OLIGO
1077
20
60.03
50.00
0.00
0.00
44.96
CCAGCATTCAGTTGGGCAAT
PRODUCT SIZE: 185, PAIR ANY_TH COMPL: 0.00, PAIR 3'_TH COMPL: 0.00
Statistics
con
too
in
in
not
no
tm
tm
high high high
high
sid many
tar excl
ok
bad
GC
too
too any_th 3'_th hair- poly
end
ered
Ns
get
reg
reg
GC% clamp
low high compl compl
pin
X
stab
ok
Left
5630
0
34
0
0
235
0 1439 1822
0
0
23
64
0 2013
Right
7602
0
35
0
0
302
0 1975 2430
0
0
1
66
0 2793
Intl
14305
0
0
0
0
16
0 1699 8280
0
0
16
0
0 4294
Pair Stats:
considered 56242, no target 4417, unacceptable product size 51820, primer in pair
overlaps a primer in a better pair 1626, ok 5
libprimer3 release 2.3.6
(primer3_results.cgi release 4.0.0)