IGEM:IMPERIAL/2006/project/parts/jonny
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Jonny gave us a sequence without telling us what it is
I am 100% sure it is the correct sequence for J37019 because...
Sequencce
TTGAGTTTTAGAAATAACAATAGGGGTTCCGCGCACATTTCCCCGAAAAGTGCCACCTGACGTCTAAGAAACCATTATTA TCATGACATTAACCTATAAAAATAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGAT GATTTCTGGAATTCGCGGCCGCTTCTAGAGACCTGTAGGATCGTACAGGTTTACGCAAGAAAATGGTTTGTTATAGTCGA ATAAATACTAGAGAAAGAGGAGAAATACTAGATGAAAAACATAAATGCCGACGACACATACAGAATAATTAATAAAATTA AAGCTTGTAGAAGCAATAATGATATTAATCAATGCTTATCTGATATGACTAAAATGGTACATTGTGAATATTATTTACTC GCGATCATTTATCCTCATTCTATGGTTAAATCTGATATTTCAATCCTAGATAATTACCCTAAAAAATGGAGGCAATATTA TGATGACGCTAATTTAATAAAATATGATCCTATAGTAGATTATTCTAACTCCAATCATTCACCAATTAATTGGAATATAT TTGAAAACAATGCTGTAAATAAAAAATCTCCAAATGTAATTAAAGAAGCGAAAACATCAGGTCTTATCACTGGGTTTAGT TTCCCTATTCATACGGCTAACAATGGCTTCGGAATGCTTAGTTTTGCACATTCAGAAAAAGACAACTATATAGATAGTTT ATTTTTACATGCGTGTATGAACATACCATTAATTGTTCCTTCTCTAGNTGATAATTATCGNAAAANTTACATTTNGCAAA TTATAANATCCAACAACGATTTAACCAAAAGAGAAAAAGAAAGGTTTAGGCGTGGGGCATGCGAAGGAAAAAAGCTCTTG GGATNTTTCCAAAAATNTTNGGNTGCAGNGNGCGTCCTGTCCCCTTTCCNTTTGANCNANGNCGCAAATGNAACTCCANT CCAACNANCNGCTGNCNAGGTNTTCTTAAGCCANTTTTANCGGNNCCANTNGATTGCCCNNCCTTTNAAANTNNANANCC NGGATNGGGGCTTGGGGGGGGNTCCCTTCCNNNGNCAANGGGGGGGNNNTCCCGGTGGG
Alignment with J37015
I can say with absolute certianty that this sequences contains the RBS B0034 followed by LuxR It may also contain the promoter but we cannot be sure
CLUSTAL W (1.83) multiple sequence alignment
test TTGAGTTTTAGAAATAACAATAGGGGTTCCGCGCACATTTCCCCGAAAAGTGCCACCTGA 60
J37015 ------------------------------------------------------------
test CGTCTAAGAAACCATTATTATCATGACATTAACCTATAAAAATAGGCGTATCACGAGGCA 120
J37015 ------------------------------------------------------------
test GAATTTCAGATAAAAAAAATCCTTAGCTTTCGCTAAGGATGATTTCTGGAATTCGCGGCC 180
J37015 ------------------------------------------------------------
test GCTTCTAGAGACCTGTAGGATCGTACAGGTTTACGCAAGAAAATGGTTTGTTATAGTCGA 240
J37015 -----------TCCCTATCAGTGATAGAGATTGACATCCCTATCAGTGATAGAGATACTG 49
* ** * * * ** * ** * * *
test ATAAATACTAGAGAAAGAGGAGAAATACTAGATGAAAAACATAAATGCCGACGACACATA 300
J37015 AGCACTACTAGAGAAAGAGGAGAAATACTAGATGAAAAACATAAATGCCGACGACACATA 109
* * *******************************************************
test CAGAATAATTAATAAAATTAAAGCTTGTAGAAGCAATAATGATATTAATCAATGCTTATC 360
J37015 CAGAATAATTAATAAAATTAAAGCTTGTAGAAGCAATAATGATATTAATCAATGCTTATC 169
************************************************************
test TGATATGACTAAAATGGTACATTGTGAATATTATTTACTCGCGATCATTTATCCTCATTC 420
J37015 TGATATGACTAAAATGGTACATTGTGAATATTATTTACTCGCGATCATTTATCCTCATTC 229
************************************************************
test TATGGTTAAATCTGATATTTCAATCCTAGATAATTACCCTAAAAAATGGAGGCAATATTA 480
J37015 TATGGTTAAATCTGATATTTCAATCCTAGATAATTACCCTAAAAAATGGAGGCAATATTA 289
************************************************************
test TGATGACGCTAATTTAATAAAATATGATCCTATAGTAGATTATTCTAACTCCAATCATTC 540
J37015 TGATGACGCTAATTTAATAAAATATGATCCTATAGTAGATTATTCTAACTCCAATCATTC 349
************************************************************
test ACCAATTAATTGGAATATATTTGAAAACAATGCTGTAAATAAAAAATCTCCAAATGTAAT 600
J37015 ACCAATTAATTGGAATATATTTGAAAACAATGCTGTAAATAAAAAATCTCCAAATGTAAT 409
************************************************************
test TAAAGAAGCGAAAACATCAGGTCTTATCACTGGGTTTAGTTTCCCTATTCATACGGCTAA 660
J37015 TAAAGAAGCGAAAACATCAGGTCTTATCACTGGGTTTAGTTTCCCTATTCATACGGCTAA 469
************************************************************
test CAATGGCTTCGGAATGCTTAGTTTTGCACATTCAGAAAAAGACAACTATATAGATAGTTT 720
J37015 CAATGGCTTCGGAATGCTTAGTTTTGCACATTCAGAAAAAGACAACTATATAGATAGTTT 529
************************************************************
test ATTTTTACATGCGTGTATGAACATACCATTAATTGTTCCTTCTCTAGTGATAATTATC-- 778
J37015 ATTTTTACATGCGTGTATGAACATACCATTAATTGTTCCTTCTCTAGTTGATAATTATCG 589
************************************************ * *
test GAAAATTACATTTGCAAATTATAAATCCAACAACGATTTAACCAAAAGAGAAAAAGAAAG 838
J37015 AAAAATAAATATAGCAAATAATAAATCAAACAACGATTTAACCAAAAGAGAAAAAGAATG 649
***** * * ****** ******* ****************************** *
test GTTTAGGCGTGGGGCATGCGAAGGAAAAAAGCTCTTGGGATTTTCCAAAAATTTGGTGCA 898
J37015 TTTAGCGTGGGCATGCGAAGGAAAAAGCTCTTGGGATATTTCAAAAATATTAGGTTGCAG 709
** * * * * * ** * * *
test GGGCGTCCTGTCCCCTTTCCTTTGACAGCGCAAATGAACTCCATCCAACACGCTGCAGGT 958
J37015 TGAGCGTACTGTCACTTTCCATTTAACCAATGCGCAAATGAAACTCAATACAACAAACCG 769
* * ****** ** * ** * *** ** *
test TTCTTAAGCCATTTTACGGCCATGATTGCCCCCTTTAAATAACCGGATGGGGCTTGGGGG 1018
J37015 CTGCCAAAGTATTTCTAAAGCAATTTTAACAGGAGCAATTGATTGCCCATACTTTAAAAA 829
* ** **** ** ** * ** * * * **
test GGGTCCCTTCCGCAAGGGGGGGTCCCGGTGGG---------------------------- 1050
J37015 TTAATAACACTGATAGTGCTAGTGTAGATCACTACTAGAGCCAGGCATCAAATAAAACGA 889
* * ** * ** * *
test ------------------------------------------------------------
J37015 AAGGCTCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTC 949
test ------------------------------------------------------------
J37015 TACTAGAGTCACACTGGCTCACCTTCGGGTGGGCCTTTCTGCGTTTATATACTAGAGACC 1009
test ------------------------------------------------------------
J37015 TGTAGGATCGTACAGGTTTACGCAAGAAAATGGTTTGTTATAGTCGAATAAATACTAGAG 1069
test ------------------------------------------------------------
J37015 AAAGAGGAGAAATACTAGATGACTATAATGATAAAAAAATCGGATTTTTTGGCAATTCCA 1129
test ------------------------------------------------------------
J37015 TCGGAGGAGTATAAAGGTATTCTAAGTCTTCGTTATCAAGTGTTTAAGCAAAGACTTGAG 1189
test ------------------------------------------------------------
J37015 TGGGACTTAGTTGTAGAAAATAACCTTGAATCAGATGAGTATGATAACTCAAATGCAGAA 1249
test ------------------------------------------------------------
J37015 TATATTTATGCTTGTGATGATACTGAAAATGTAAGTGGATGCTGGCGTTTATTACCTACA 1309
test ------------------------------------------------------------
J37015 ACAGGTGATTATATGCTGAAAAGTGTTTTTCCTGAATTGCTTGGTCAACAGAGTGCTCCC 1369
test ------------------------------------------------------------
J37015 AAAGATCCTAATATAGTCGAATTAAGTCGTTTTGCTGTAGGTAAAAATAGCTCAAAGATA 1429
test ------------------------------------------------------------
J37015 AATAACTCTGCTAGTGAAATTACAATGAAACTATTTGAAGCTATATATAAACACGCTGTT 1489
test ------------------------------------------------------------
J37015 AGTCAAGGTATTACAGAATATGTAACAGTAACATCAACAGCAATAGAGCGATTTTTAAAG 1549
test ------------------------------------------------------------
J37015 CGTATTAAAGTTCCTTGTCATCGTATTGGAGACAAAGAAATTCATGTATTAGGTGATACT 1609
test ------------------------------------------------------------
J37015 AAATCGGTTGTATTGTCTATGCCTATTAATGAACAGTTTAAAAAAGCAGTCTTAAATGCT 1669
test ------------------------------------------------------------
J37015 GCAAACGACGAAAACTACGCTTTAGTAGCTTAATAACTCTGATAGTGCTAGTGTAGATCT 1729
test ------------------------------------------------------------
J37015 CTACTAGAGAAAGAGGAGAAATACTAGATGCGTAAAGGAGAAGAACTTTTCACTGGAGTT 1789
test ------------------------------------------------------------
J37015 GTCCCAATTCTTGTTGAATTAGATGGTGATGTTAATGGGCACAAATTTTCTGTCAGTGGA 1849
test ------------------------------------------------------------
J37015 GAGGGTGAAGGTGATGCAACATACGGAAAACTTACCCTTAAATTTATTTGCACTACTGGA 1909
test ------------------------------------------------------------
J37015 AAACTACCTGTTCCATGGCCAACACTTGTCACTACTTTCGGTTATGGTGTTCAATGCTTT 1969
test ------------------------------------------------------------
J37015 GCGAGATACCCAGATCATATGAAACAGCATGACTTTTTCAAGAGTGCCATGCCCGAAGGT 2029
test ------------------------------------------------------------
J37015 TATGTACAGGAAAGAACTATATTTTTCAAAGATGACGGGAACTACAAGACACGTGCTGAA 2089
test ------------------------------------------------------------
J37015 GTCAAGTTTGAAGGTGATACCCTTGTTAATAGAATCGAGTTAAAAGGTATTGATTTTAAA 2149
test ------------------------------------------------------------
J37015 GAAGATGGAAACATTCTTGGACACAAATTGGAATACAACTATAACTCACACAATGTATAC 2209
test ------------------------------------------------------------
J37015 ATCATGGCAGACAAACAAAAGAATGGAATCAAAGTTAACTTCAAAATTAGACACAACATT 2269
test ------------------------------------------------------------
J37015 GAAGATGGAAGCGTTCAACTAGCAGACCATTATCAACAAAATACTCCAATTGGCGATGGC 2329
test ------------------------------------------------------------
J37015 CCTGTCCTTTTACCAGACAACCATTACCTGTCCACACAATCTGCCCTTTCGAAAGATCCC 2389
test ------------------------------------------------------------
J37015 AACGAAAAGAGAGACCACATGGTCCTTCTTGAGTTTGTAACAGCTGCTGGGATTACACAT 2449
test ------------------------------------------------------------
J37015 GGCATGGATGAACTATACAAATAATAATACTAGAGCCAGGCATCAAATAAAACGAAAGGC 2509
test ------------------------------------------------------------
J37015 TCAGTCGAAAGACTGGGCCTTTCGTTTTATCTGTTGTTTGTCGGTGAACGCTCTCTACTA 2569
test --------------------------------------------
J37015 GAGTCACACTGGCTCACCTTCGGGTGGGCCTTTCTGCGTTTATA 2613
alignment with J37019 + restriction sites
This sequence reads restriction sites RBS Luxr so it is J37019
test TTGAGTTTTAGAAATAACAATAGGGGTTCCGCGCACATTTCCCCGAAAAG 50
restrictionsitesplusJ37019 --------------------------------------------------
test TGCCACCTGACGTCTAAGAAACCATTATTATCATGACATTAACCTATAAA 100
restrictionsitesplusJ37019 --------------------------------------------------
test AATAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTT 150
restrictionsitesplusJ37019 ---------------------------------AAAAAATCCTTAGCTTT 17
*****************
test CGCTAAGGATGATTTCTGGAATTCGCGGCCGCTTCTAGAGACCTGTAGGA 200
restrictionsitesplusJ37019 CGCTAAGGATGATTTCTGGAATTCGCGGCCGCTTCTAGAGACCTGTAGGA 67
**************************************************
test TCGTACAGGTTTACGCAAGAAAATGGTTTGTTATAGTCGAATAAATACTA 250
restrictionsitesplusJ37019 TCGTACAGGTTTACGCAAGAAAATGGTTTGTTATAGTCGAATAAATACTA 117
**************************************************
test GAGAAAGAGGAGAAATACTAGATGAAAAACATAAATGCCGACGACACATA 300
restrictionsitesplusJ37019 GAGAAAGAGGAGAAATACTAGATGAAAAACATAAATGCCGACGACACATA 167
**************************************************
test CAGAATAATTAATAAAATTAAAGCTTGTAGAAGCAATAATGATATTAATC 350
restrictionsitesplusJ37019 CAGAATAATTAATAAAATTAAAGCTTGTAGAAGCAATAATGATATTAATC 217
**************************************************
test AATGCTTATCTGATATGACTAAAATGGTACATTGTGAATATTATTTACTC 400
restrictionsitesplusJ37019 AATGCTTATCTGATATGACTAAAATGGTACATTGTGAATATTATTTACTC 267
**************************************************
test GCGATCATTTATCCTCATTCTATGGTTAAATCTGATATTTCAATCCTAGA 450
restrictionsitesplusJ37019 GCGATCATTTATCCTCATTCTATGGTTAAATCTGATATTTCAATCCTAGA 317
**************************************************
test TAATTACCCTAAAAAATGGAGGCAATATTATGATGACGCTAATTTAATAA 500
restrictionsitesplusJ37019 TAATTACCCTAAAAAATGGAGGCAATATTATGATGACGCTAATTTAATAA 367
**************************************************
test AATATGATCCTATAGTAGATTATTCTAACTCCAATCATTCACCAATTAAT 550
restrictionsitesplusJ37019 AATATGATCCTATAGTAGATTATTCTAACTCCAATCATTCACCAATTAAT 417
**************************************************
test TGGAATATATTTGAAAACAATGCTGTAAATAAAAAATCTCCAAATGTAAT 600
restrictionsitesplusJ37019 TGGAATATATTTGAAAACAATGCTGTAAATAAAAAATCTCCAAATGTAAT 467
**************************************************
test TAAAGAAGCGAAAACATCAGGTCTTATCACTGGGTTTAGTTTCCCTATTC 650
restrictionsitesplusJ37019 TAAAGAAGCGAAAACATCAGGTCTTATCACTGGGTTTAGTTTCCCTATTC 517
**************************************************
test ATACGGCTAACAATGGCTTCGGAATGCTTAGTTTTGCACATTCAGAAAAA 700
restrictionsitesplusJ37019 ATACGGCTAACAATGGCTTCGGAATGCTTAGTTTTGCACATTCAGAAAAA 567
**************************************************
test GACAACTATATAGATAGTTTATTTTTACATGCGTGTATGAACATACCATT 750
restrictionsitesplusJ37019 GACAACTATATAGATAGTTTATTTTTACATGCGTGTATGAACATACCATT 617
**************************************************
test AATTGTTCCTTCTCTAGTGATAATTATC--GAAAATTACATTTGCAAATT 798
restrictionsitesplusJ37019 AATTGTTCCTTCTCTAGTTGATAATTATCGAAAAATAAATATAGCAAATA 667
****************** * * ***** * * ******
test ATAAATCCAACAACGATTTAACCAAAAGAGAAAAAGAAAGGTTTAGGCGT 848
restrictionsitesplusJ37019 ATAAATCAAACAACGATTTAACCAAAAGAGAAAAAGAATGTTTAGCGTGG 717
******* ****************************** * ** * *
test GGGGCATGCGAAGGAAAAAAGCTCTTGGGATTTTCCAAAAATTTGGTGCA 898
restrictionsitesplusJ37019 GCATGCGAAGGAAAAAGCTCTTGGGATATTTCAAAAATATTAGGTTGCAG 767
* * * ** * * *
test GGGCGTCCTGTCCCCTTTCCTTTGACAGCGCAAATGAACTCCATCCAACA 948
restrictionsitesplusJ37019 TGAGCGTACTGTCACTTTCCATTTAACCAATGCGCAAATGAAACTCAATA 817
* * ****** ** * ** * *** *
test CGCTGCAGGTTTCTTAAGCCATTTTACGGCCATGATTGCCCCCTTTAAAT 998
restrictionsitesplusJ37019 CAACAAACCGCTGCCAAAGTATTTCTAAAGCAATTTTAACAGGAGCAATT 867
* * * ** **** ** ** * ** *
test AACCGGATGGGGCTTGGGGGGGGTCCCTTCCGCAAGGGGGGGTCCCGGTG 1048
restrictionsitesplusJ37019 GATTGCCCATACTTTAAAAATTAATAACACTGATAGTGCTAGTGTAGATC 917
* * ** * * ** * ** * *
test GG 1050
restrictionsitesplusJ37019 AC 919
