BBa_M13505
1
BBa_M13505
M13KO7 gene V RBS
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene V message (BBa_M13005). The part aligns with base pairs 827-842 in M13K07 genome. It was identified as the RBS for the gene V message by Wezenbeek et al in Gene (1980) 11: 129-148
false
false
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M13507
1
BBa_M13507
M13KO7 gene VII RBS
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene VII message (BBa_M13007). The part aligns with base pairs 1092-1107 in M13K07 genome. It was identified as the RBS for gene VII message by Wezenbeek et al in Gene (1980) 11: 129-148
false
true
_45_
0
314
1
Not in stock
false
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
Natalie Kuldell
BBa_M31384
1
BBa_M31384
XbaI Restriction Site
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Known XbaI Restriction Enzyme Site
XbaI Restriction Site: T^CTAG_A
false
false
_102_
0
1395
102
Not in stock
false
Known Sequence
false
Michael Oh
BBa_M31380
1
BBa_M31380
ApaI Restriction Site
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Known Restriction Enzyme Site
ApaI Restriction Site: G_GGCC^C
false
false
_102_
0
1395
102
Not in stock
false
Known Sequence
false
Michael Oh
BBa_M31373
1
BBa_M31373
First Half of M13K07 g3
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 phage genome
Codes for the g3 ORF of M13K07 phage until the BamHI unique restriction site.
false
false
_102_
0
1395
102
Not in stock
false
Cut at BamHI restriction site
false
Michael Oh
annotation1918449
1
BamHI
range1918449
1
642
642
BBa_M31378
1
BBa_M31378
M13K07 g8 ORF -Promoter g3
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 phage genome
Contains the M13K07 g8 open reading frame with the g3 promoter overlap removed by silent mutation.
false
false
_102_
0
1395
102
Not in stock
false
Change codons in relevant sequences so that amino acid sequence is the same
false
Michael Oh
BBa_M13509
1
BBa_M13509
M13Ko7 gene IX RBS
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene IX message (BBa_M13009). The part aligns with base pairs 1190-1205 in M13K07 genome. It was identified as the RBS for gene IX message by Wezenbeek et al in Gene (1980) 11: 129-148
false
false
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M31375
1
BBa_M31375
M13K07 g5 ORF -RBS g7
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 g5 open reading frame
Contains the open reading frame of g5 from the M13K07 phage genome. The last few codons are silently mutated to remove the g5 RBS sequence.
false
false
_102_
0
1395
102
Not in stock
false
Changed every other codon in the RBS sequence but maintained the same amino acid sequence.
false
Michael Oh
annotation1919583
1
BsrGI
range1919583
1
179
184
BBa_M13503
1
BBa_M13503
M13K07 gene III RBS
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene III message (BBa_M13003). The part aligns with base pairs 1563-1578 in M13K07 genome. It was identified as the RBS for gene III message by Wezenbeek et al in Gene (1980) 11: 129-148
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
false
false
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M13508
1
BBa_M13508
M13K07 gene VIII RBS
2006-12-14T12:00:00Z
2015-05-08T01:13:56Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban
This RBS is part of the bacteriophage M13 genome, initiating translation of the gene VIII message (BBa_M13008). The part aligns with base pairs 1285-1300 in M13K07 genome. It was identified as the RBS for gene VIII message by Wezenbeek et al in Gene (1980) 11: 129-148
false
true
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M31377
1
BBa_M31377
M13K07 g7 ORF -Promoter g8 -RBS g9 -ORF g9
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 phage genome g7 ORF
Contains the M13K07 g7 open reading frame with the g8 promoter, g9 RBS, and g9 ORF sequences and overlaps removed by silent mutation.
false
false
_102_
0
1395
102
Not in stock
false
Change codons in relevant sequences so that amino acid sequence is the same
false
Michael Oh
BBa_M31379
1
BBa_M31379
M13K07 g9 ORF -RBS g8 -ORF g8
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 phage genome
Contains the M13K07 g9 open reading frame with the g8 RBS, and g8 ORF sequences and overlaps removed by silent mutation.
false
false
_102_
0
1395
102
Not in stock
false
Change codons in relevant sequences so that amino acid sequence is the same
false
Michael Oh
annotation1919633
1
SnaBI
range1919633
1
63
68
BBa_M13103
1
BBa_M13103
M13K07 gene III promoter
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
This part is from the bacteriophage M13 genome, bp 1500-1547 in M13K07. It directs transcription of M13 gene III (BBa_M13503, BBa_M13003). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
false
true
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M31383
1
BBa_M31383
NcoI Restriction Site
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Known NcoI Restriction Enzyme Site
NcoI Restriction Site: C^CATG_G
false
false
_102_
0
1395
102
Not in stock
false
Known Sequence
false
Michael Oh
BBa_M13105
1
BBa_M13105
M13K07 gene V promoter
2006-12-15T12:00:00Z
2015-05-08T01:13:55Z
New England Biolabs M13K07. Sequenced in 2002 by L. Panganaban.
This part is from the bacteriophage M13 genome, bp 786-835 in M13K07. It directs transcription of M13 gene V (BBa_M13505, BBa_M13005). Its identity as a promoter was described in Gene (1980) 11:129-148 based on -10,-35 homology and fragment of genome able to bind RNAP.
false
false
_45_
0
314
1
Not in stock
false
none
false
Natalie Kuldell
BBa_M31372
1
BBa_M31372
Second Half of M13K07 g2 -Promoter g5 -RBS g5
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
M13K07 phage genome
Starts with the HpaI unique restriction site in M13K07 genome and continues until the stop codon of gII.
false
false
_102_
0
1395
102
Not in stock
false
Cut after HpaI restriction site
false
Michael Oh
annotation1918411
1
Promoter g10
range1918411
1
381
428
annotation1918410
1
RBS g10
range1918410
1
480
495
annotation1918409
1
g10
range1918409
1
496
831
annotation1918394
1
HpaI
range1918394
1
1
3
BBa_M31370
1
BBa_M31370
tacI Promoter
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Derived from trp and lac promoter sequences.
Allows for regulation of following gene with laqIq and IPTG...laqIq in same plasmid represses the promoter and IPTG proportionally depresses the promoter (Boer, et al., 1983).
false
false
_102_
0
1395
102
Not in stock
false
Took sequence from Boer, 1983 paper.
false
Michael Oh
BBa_M31381
1
BBa_M31381
BssHII Restriction Site
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Known BssHII Restriction Enzyme Site
BssHII Restriction Site: G_CGCG^C
false
true
_102_
0
1395
102
Not in stock
false
Known Sequence
false
Michael Oh
BBa_M31382
1
BBa_M31382
EcoRI Restriction Site
2007-02-28T12:00:00Z
2015-05-08T01:14:00Z
Known EcoRI Restriction Enzyme Site
EcoRI Restriction Site: G^AATT_C
false
true
_102_
0
1395
102
Not in stock
false
Known Sequence
false
Michael Oh
BBa_M31270
1
BBa_M31270
M13.1: Refactored M13K07 Phage
2007-02-27T12:00:00Z
2015-05-08T01:13:59Z
The source DNA is bases 1-2435 from the M13K07 phage, which is bounded by the HpaI and BamHI restriction sites.
The following sequence of DNA is drawn from the M13K07 phage plasmid, specifically the section between the HpaI and BamHI restriction sites. This section incorporates all or parts of seven open reading frames, many of which are overlapping in the wild-type genotype. The result is a synthetic biology-oriented genome that can be better understood and hopefully will be more easily manipulated for bioengineering purposes.
false
false
_102_
0
1395
102
Not in stock
false
Overlaps were eliminated through direct duplication of appropriate sequences. Homologous recombination possibilities were diminished by silent mutation of the first instance of duplicated codons. About half the duplicated codons were changed in this manner.
false
Michael Oh
component2237218
1
BBa_M31370
component2237217
1
BBa_M31383
component2237207
1
BBa_M13505
component2237210
1
BBa_M31381
component2237212
1
BBa_M31377
component2237223
1
BBa_M13503
component2237214
1
BBa_M13509
component2237205
1
BBa_M31380
component2237216
1
BBa_M31379
component2237204
1
BBa_M31372
component2237224
1
BBa_M31373
component2237206
1
BBa_M13105
component2237213
1
BBa_M31382
component2237222
1
BBa_M13103
component2237211
1
BBa_M13507
component2237221
1
BBa_M31384
component2237219
1
BBa_M13508
component2237209
1
BBa_M31375
component2237220
1
BBa_M31378
annotation2237214
1
BBa_M13509
range2237214
1
1299
1314
annotation2237223
1
BBa_M13503
range2237223
1
1789
1804
annotation2237206
1
BBa_M13105
range2237206
1
839
888
annotation2237204
1
BBa_M31372
range2237204
1
1
832
annotation2237212
1
BBa_M31377
range2237212
1
1191
1292
annotation2237217
1
BBa_M31383
range2237217
1
1414
1419
annotation2237210
1
BBa_M31381
range2237210
1
1169
1174
annotation2237219
1
BBa_M13508
range2237219
1
1488
1503
annotation2237207
1
BBa_M13505
range2237207
1
889
904
annotation2237205
1
BBa_M31380
range2237205
1
833
838
annotation2237224
1
BBa_M31373
range2237224
1
1805
2446
annotation2237213
1
BBa_M31382
range2237213
1
1293
1298
annotation2237216
1
BBa_M31379
range2237216
1
1315
1413
annotation2237222
1
BBa_M13103
range2237222
1
1741
1788
annotation2237211
1
BBa_M13507
range2237211
1
1175
1190
annotation2237209
1
BBa_M31375
range2237209
1
905
1168
annotation2237220
1
BBa_M31378
range2237220
1
1504
1725
annotation2237218
1
BBa_M31370
range2237218
1
1420
1487
annotation2237221
1
BBa_M31384
range2237221
1
1726
1740
BBa_M31373_sequence
1
gtgaaaaaattattattcgcaattcctttagttgttcctttctattctcactccgctgaaactgttgaaagttgtttagcaaaaccccatacagaaaattcatttactaacgtctggaaagacgacaaaactttagatcgttacgctaactatgagggttgtctgtggaatgctacaggcgttgtagtttgtactggtgacgaaactcagtgttacggtacatgggttcctattgggcttgctatccctgaaaatgagggtggtggctctgagggtggcggttctgagggtggcggttctgagggtggcggtactaaacctcctgagtacggtgatacacctattccgggctatacttatatcaaccctctcgacggcacttatccgcctggtactgagcaaaaccccgctaatcctaatccttctcttgaggagtctcagcctcttaatactttcatgtttcagaataataggttccgaaataggcagggggcattaactgtttatacgggcactgttactcaaggcactgaccccgttaaaacttattaccagtacactcctgtatcatcaaaagccatgtatgacgcttactggaacggtaaattcagagactgcgctttccattctggctttaatgag
BBa_M13503_sequence
1
tttggagattttcaac
BBa_M13105_sequence
1
ccaacgtcctgactggtataatgagccagttcttaaaatcgcataaggta
BBa_M31377_sequence
1
atggagcaggtcgcggatttcgacacaatttatcaggcgatgatacaaatttccgtagtactatgtttggcgctaggtattatcgcagggggacaaaggtga
BBa_M31380_sequence
1
gggccc
BBa_M13507_sequence
1
gttccggctaagtaac
BBa_M13103_sequence
1
aattcacctcgaaagcaagctgataaaccgatacaattaaaggctcct
BBa_M31383_sequence
1
ccatgg
BBa_M31379_sequence
1
atgagtgttttagtgtattctttcgcctctttcgttttaggttggtgccttcgtagtggcattacgtattttacccgtttaatggaaacttcctcatga
BBa_M31375_sequence
1
atgattaaagttgaaattaaaccatctcaagcccaatttactactcgttctggtgtttctcgtcagggcaagccttattcactgaatgagcagctttgttacgttgatttgggtaatgaatatccggttcttgtcaagattactcttgatgaaggtcagccagcctatgcgcctggtctgtacaccgttcatctgtcctctttcaaagttggtcagttcggttcccttatgattgaccgtctgcgcctcgtaccggcaaactaa
BBa_M13508_sequence
1
taatggaaacttcctc
BBa_M31384_sequence
1
ttttctagatttttt
BBa_M31378_sequence
1
atgaaaaagtctttagtcctcaaagcctctgtagccgttgctaccctcgttccgatgctgtctttcgctgctgagggtgacgatcccgcaaaagcggcctttaactccctgcaagcctcagcgaccgaatatatcggttatgcgtgggcgatggttgttgtcattgtcggcgcaactatcggtatcaagctgtttaagaaatttacctccaaagctagttga
BBa_M31270_sequence
1
aacgctactactattagtagaattgatgccaccttttcagctcgcgccccaaatgaaaatatagctaaacaggttattgaccatttgcgaaatgtatctaatggtcaaactaaatctactcgttcgcagaaatgggagtcaacagttaacatggaatgaaacttccagacaccgtactttagttgcatatttaaaacatgttgagctacagcaccagattcagcaattaagctctaagccatccgcaaaaatgacctcttatcaaaaggagcaattaaaggtactctctaatcctgacctgttggagtttgcttccggtctggttcgctttgaagctcgaattaaaacgcgatatttgaagtctttcgggcttcctcttaatctttttgatgcaatccgctttgcttctgactataatagtcagggtaaagacctgatttttgatttatggtcattctcgttttctgaactgtttaaagcatttgagggggattcaatgaatatttatgacgattccgcagtattggacgctatccagtctaaacattttactattaccccctctggcaaaacttcttttgcaaaagcctctcgctattttggtttttatcgtcgtctggtaaacgagggttatgatagtgttgctcttactatgcctcgtaattccttttggcgttatgtatctgcattagttgaatgtggtattcctaaatctcaactgatgaatctttctacctgtaataatgttgttccgttagttcgttttattaacgtagatttttcttcccaacgtcctgactggtataatgagccagttcttaaaatcgcttaagggcccccaacgtcctgactggtataatgagccagttcttaaaatcgcataaggtacataaggtaattcacaatgattaaagttgaaattaaaccatctcaagcccaatttactactcgttctggtgtttctcgtcagggcaagccttattcactgaatgagcagctttgttacgttgatttgggtaatgaatatccggttcttgtcaagattactcttgatgaaggtcagccagcctatgcgcctggtctgtacaccgttcatctgtcctctttcaaagttggtcagttcggttcccttatgattgaccgtctgcgcctcgtaccggcaaactaagcgcgcgttccggctaagtaacatggagcaggtcgcggatttcgacacaatttatcaggcgatgatacaaatttccgtagtactatgtttggcgctaggtattatcgcagggggacaaaggtgagaattctcgctgggggtcaaagatgagtgttttagtgtattctttcgcctctttcgttttaggttggtgccttcgtagtggcattacgtattttacccgtttaatggaaacttcctcatgaccatgggagctgttgacaattaatcatcggctcgtataatgtgtggaattgtgagcggataacaatttcacacataatggaaacttcctcatgaaaaagtctttagtcctcaaagcctctgtagccgttgctaccctcgttccgatgctgtctttcgctgctgagggtgacgatcccgcaaaagcggcctttaactccctgcaagcctcagcgaccgaatatatcggttatgcgtgggcgatggttgttgtcattgtcggcgcaactatcggtatcaagctgtttaagaaatttacctccaaagctagttgattttctagattttttaattcacctcgaaagcaagctgataaaccgatacaattaaaggctccttttggagattttcaacgtgaaaaaattattattcgcaattcctttagttgttcctttctattctcactccgctgaaactgttgaaagttgtttagcaaaaccccatacagaaaattcatttactaacgtctggaaagacgacaaaactttagatcgttacgctaactatgagggttgtctgtggaatgctacaggcgttgtagtttgtactggtgacgaaactcagtgttacggtacatgggttcctattgggcttgctatccctgaaaatgagggtggtggctctgagggtggcggttctgagggtggcggttctgagggtggcggtactaaacctcctgagtacggtgatacacctattccgggctatacttatatcaaccctctcgacggcacttatccgcctggtactgagcaaaaccccgctaatcctaatccttctcttgaggagtctcagcctcttaatactttcatgtttcagaataataggttccgaaataggcagggggcattaactgtttatacgggcactgttactcaaggcactgaccccgttaaaacttattaccagtacactcctgtatcatcaaaagccatgtatgacgcttactggaacggtaaattcagagactgcgctttccattctggctttaatgag
BBa_M13505_sequence
1
cataaggtaattcaca
BBa_M13509_sequence
1
tcgctgggggtcaaag
BBa_M31370_sequence
1
gagctgttgacaattaatcatcggctcgtataatgtgtggaattgtgagcggataacaatttcacaca
BBa_M31372_sequence
1
aacgctactactattagtagaattgatgccaccttttcagctcgcgccccaaatgaaaatatagctaaacaggttattgaccatttgcgaaatgtatctaatggtcaaactaaatctactcgttcgcagaaatgggagtcaacagttaacatggaatgaaacttccagacaccgtactttagttgcatatttaaaacatgttgagctacagcaccagattcagcaattaagctctaagccatccgcaaaaatgacctcttatcaaaaggagcaattaaaggtactctctaatcctgacctgttggagtttgcttccggtctggttcgctttgaagctcgaattaaaacgcgatatttgaagtctttcgggcttcctcttaatctttttgatgcaatccgctttgcttctgactataatagtcagggtaaagacctgatttttgatttatggtcattctcgttttctgaactgtttaaagcatttgagggggattcaatgaatatttatgacgattccgcagtattggacgctatccagtctaaacattttactattaccccctctggcaaaacttcttttgcaaaagcctctcgctattttggtttttatcgtcgtctggtaaacgagggttatgatagtgttgctcttactatgcctcgtaattccttttggcgttatgtatctgcattagttgaatgtggtattcctaaatctcaactgatgaatctttctacctgtaataatgttgttccgttagttcgttttattaacgtagatttttcttcccaacgtcctgactggtataatgagccagttcttaaaatcgcttaa
BBa_M31381_sequence
1
gcgcgc
BBa_M31382_sequence
1
gaattc
igem2sbol
1
iGEM to SBOL conversion
Conversion of the iGEM parts registry to SBOL2.1
James Alastair McLaughlin
Chris J. Myers
2017-03-06T15:00:00.000Z