IGEM:IMPERIAL/2006/project/parts/jonny

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