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Team:Carnegie Mellon/Week14
From 2013.igem.org
KillerRed DNA sequence (our plasmid):
ATGGGTTCAGAGGGCGGCCCCGCCCTGTTCCAGAGCGACATGACCTTCAAAATCTT
CATCGACGGCGAGGTGAACGGCCAGAAGTTCACCATCGTGGCCGACGGCAGCAGCA
AGTTCCCCCACGGCGACTTCAACGTGCACGCCGTGTGCGAGACCGGCAAGCTGCCC
ATGAGCTGGAAGCCCATCTGCCACCTGATCCAGTACGGCGAGCCCTTCTTCGCCCG
CTACCCCGACGGCATCAGCCATTTCGCCCAGGAGTGCTTCCCCGAGGGCCTGAGCA
CGACCGCACCGTGCGCTTCGAGAACGACGGCACCATGACCAGCCACCACACCTACG
AGCTGGACGACACCTGCGTGGTGAGCCGCATCACCGTGAACTGCGACGGCTTCCAG
CCCGACGGCCCCATCATGCGCGACCAGCTGGTGGACATCCTGCCCAACGAGACCCA
CATGTTCCCCCACGGCCCCAACGCCGTGCGCCAGCTGGCCTTCATCGGCTTCACCA
CCGCCGACGGCGGCCTGATGATGGGCCACTTCGACAGCAAGATGACCTTCAACGGC
AGCCGCGCCATCGAGATCCCCGGCCCACACTTCGTGACCATCATCACCAAGCAGAT
GAGGGACACCAGCGACAAGCGCGACCACGTGTGCCAGCGCGAGGTGGCCTACGCCC
ACAGCGTGCCCCGCATCACCAGCGCCATCGGTAGCGACGAGGATTAATAA
KillerRed Protein Sequence:
MGSEGGPALFQSDMTFKIFIDGEVNGQKFTIVADGSSKFPHGDFNVHAVCETGKLP
MSWKPICHLIQYGEPFFARYPDGISHFAQECFPEGLSIDRTVRFENDGTMTSHHTY
ELDDTCVVSRITVNCDGFQPDGPIMRDQLVDILPNETHMFPHGPNAVRQLAFIGFT
TADGGLMMGHFDSKMTFNGSRAIEIPGPHFVTIITKQMRDTSDKRDHVCQREVAYA
HSVPRITSAIGSDED
KillerRed Codon Optimized Sequence:
ATGGGTAGTGAAGGCGGTCCTGCGTTATTTCAGAGCGACATGACTTTCAAAATTTT
TATAGATGGTGAAGTGAACGGACAGAAGTTCACCATCGTAGCTGATGGGTCTAGCA
AATTCCCCCATGGTGATTTCAACGTCCACGCGGTTTGTGAGACTGGTAAACTCCCG
ATGTCATGGAAACCAATCTGCCATCTGATACAGTATGGAGAGCCCTTTTTCGCCCG
GTATCCTGATGGCATATCTCATTTTGCCCAAGAGTGTTTTCCTGAGGGTCTGAGTA
TCGATCGCACAGTGCGATTTGAGAACGACGGTACCATGACTTCTCACCACACATAT
GAATTGGATGATACTTGCGTCGTCTCCCGAATCACCGTGAATTGTGATGGGTTTCA
ACCGGACGGGCCGATCATGCGGGATCAGCTGGTTGATATCCTCCCAAACGAAACTC
ATATGTTTCCTCACGGGCCAAATGCTGTGAGACAGCTGGCTTTCATCGGTTTTACG
ACCGCCGATGGCGGCCTCATGATGGGCCACTTTGATAGCAAAATGACCTTTAATGG
GAGTCGCGCAATAGAAATTCCAGGCCCGCATTTTGTTACAATTATCACCAAACAGA
TGCGTGACACGAGCGATAAGCGCGACCATGTTTGCCAGCGTGAGGTTGCGTATGCA
CATTCAGTGCCGCGAATCACAAGTGCAATCGGTTCAGACGAAGACTAATAA
Alignment (Query=Optimized and Subject=Current plasmid)
Score = 583 bits (646), Expect = 9e-171
Identities = 563/723 (78%), Gaps = 0/723 (0%)
Strand=Plus/Plus
Problems with unoptimized KillerRed gene:
12x rare Proline codons in the unoptimized (CCC)
5x rare Lysine codons in the unoptimized (AAG)
11x rare Glutamic Acid codons in unoptimized (GAG)
