TN Report

Transposon

Name: In_Tn7

Family: Integron Group: Class 2

Evidence of Transposition: no

Host

Host Organism:	Escherichia coli	Molecular Source:	plasmid R721
		Date of Isolation:	1972

Map

Sequence

DNA Sequence

Length 3821

--------10 --------20 --------30 --------40 --------50 --------60 --------70 --------80 --------90 -------100

CTAGTTGCTT AGATACATGA TCTTCAGGCC GTTATCTGTC AGGGCAAGCG AAAATTGGCC ATTTATGACG ACCAATGCCC CGCAGAAGCT CCCATCTTTG 100
CCGCCATAGA CGCCGCGCCC CCCTTTTGGG GTGTAGAACA TCCTTTTGCC AGATGTGGAA AAGAAGTTCG TTGTCCCATT GTTGGCAATG ACGTAGTAGC 200
CGGCGAAAGT GCGAGACCCA TTTGCGCTAT ATATAAGCCT ACGATTTCCG TTGCGACTAT TGTCGTAATT GGATGAACTA TTATCGTAGT TGCTCTCAGA 300
GTTGTCGTAA TTTGATGGAC TATTGTCGTA ATTGCTTATG GAGTTGTCGT AGTTGCTTGG AGAAATGTCG TAGTTGGATG GGGAGTAGTC ATAGGGAAGA 400
CGAGCTTCAT CCACTAAAAC AATTGGCAGG TCAGCAAGTG CCTGCCCCGA TGCCATCGCA AGTACGAGGC TTAGAACCAC CTTCAACAGA TCGCGCATAG 500
TCTTCCCCAG CTCTCTAACG CTTGAGTTAA GCCGCGCCGC GAAGCGGCGT CGGCTTGAAC GAATTGTTAG ACATTATTTG CCGACTACCT TGGTGATCTC 600
GCCTTTCACG TAGTGAACAA ATTCTTCCAA CTGATCTGCG CGCGAGGCCA AGCGATCTTC TTGTCCAAGA TAAGCCTGCC TAGCTTCAAG TATGACGGGC 700
TGATACTGGG CCGGCAGGCG CTCCATTGCC CAGTCGGCAG CGACATCCTT CGGCGCGATT TTGCCGGTTA CTGCGCTGTA CCAAATGCGG GACAACGTAA 800
GCACTACATT TCGCTCATCG CCAGCCCAGT CGGGCGGCGA GTTCCATAGC GTTAAGGTTT CATTTAGCGC CTCAAATAGA TCCTGTTCAG GAACCGGATC 900
AAAGAGTTCC TCCGCCGCTG GACCTACCAA GGCAACGCTA TGTTCTCTTG CTTTTGTCAG CAAGATAGCC AGATCAATGT CGATCGTGGC TGGCTCGAAG 1000
ATACCTGCAA GAATGTCATT GCGCTGCCAT TCTCCAAATT GCAGTTCGCG CTTAGCTGGA TAACGCCACG GAATGATGTC GTCGTGCACA ACAATGGTGA 1100
CTTCTACAGC GCGGAGAATC TCGCTCTCTC CAGGGGAAGC CGAAGTTTCC AAAAGGTCGT TGATCAAAGC TCGCCGCGTT GTTTCATCAA GCCTTACGGT 1200
CACCGTAACC AGCAAATCAA TATCACTGTG TGGCTTCAGG CCGCCATCCA CTGCGGAGCC GTACAAATGT ACGGCCAGCA ACGTCGGTTC GAGATGGCGC 1300
TCGATGACGC CAACTACCTC TGATAGTTGA GTCGATACTT CGGCGATCAC CGCTTCCCTC ATGATGTTTA ACTCCTGAAT TAAGCCGCGC CGCGAAGCGG 1400
TGTCGGCTTG AATGAATTGT TAGGCGTCAT CCTGTGCTCC CGAGAACCAG TACCAGTACA TCGCTGTTTC GTTCGAGACT TGAGGTCTAG TTTTATACGT 1500
GAACAGGTCA ATGCCGCCGA GAGTAAAGCC ACATTTTGCG TACAAATTGC AGGCAGGTAC ATTGTTCGTT TGTGTCTCTA ATCGTATGCC AAGGAGCTGT 1600
CTGCTTAGTG CCCACTTTTT CGCAAATTCG ATGAGACTGT GCGCGACTCC TTTGCCTCGG TGCGTGTGCG ACACAACAAT GTGTTCGATA GAGGCTAGAT 1700
CGTTCCATGT TGAGTTGAGT TCAATCTTCC CGACAAGCTC TTGGTCGATG AATGCGCCAT AGCAAGCAGA GTCTTCATCA GAGTCATCAT CCGAGATGTA 1800
ATCCTTCCGG TAGGGGCTCA CACTTCTGGT AGATAGTTCA AAGCCTTGGT CGGATAGGTG CACATCGAAC ACTTCACGAA CAATGAAATG GTTCTCAGCA 1900
TCCAATGTTT CCGCCACCTG CTCAGGGATC ACCGAAATCT TCATATGACG CCTAACGCCT GGCACAGCGG ATCGCAAACC TGGCGCGGCT TTTGGTACAA 2000
AAGGCGTGAC AGGTTTGCGA ATCCGTTGCT GCCACTTGTT AACCCTTTTG CCAGATTTGG TAACTATAAT TTATGTTAGA GGCGAAGTCT TGGGTAAAAA 2100
CTGGCCTAAA ATTGCTGGGG ATTTCAGGAA AGTAAACATC ACCTTCCGGC TCGATGTCTA TTGTAGATAT ATGTAGTGTA TCTACTTGAT CGATCAGGCT 2200
TTTGTATATC TCCCCACCAC CTGAAACAAT GACATGATCC GTTATTTTCT TTAGGTTGGT TAAAGCATCT TTAATTGATG GAAAGATCAA TACGTTCTCA 2300
TTGTCAGATG TAAAACTTGA ACGTGTTACG ACCGCATACT TTCGGTTGGG TAATGCTCCC ATTGATTCAA AAGTCTTGCG TCCAACCAAC AGCCATTGGT 2400
TATAGGTAAT AGCTTTAAAC AGGAGCTGTT CACCTTTGGC ACTCCATGGA ATATCAGGGC CATTCCCGAT AACTCCATTC TTCGATATAG CTACCATTAG 2500
TGATAGTTTC ACAATTCTTC CTCAGAGGTT AACATTTTAT TAGTAAGCAT GCTCGTTTTG TCACCCGCTG ATGCTTACCG TTAATTAATA TAATCACTTG 2600
TATTAAATAG ACTTTCTTTA AAAATACAAG ACACTCTGTT ATTACAAATC GTGCATGCCG TCTATCCTGC TTGCACGATG CACATTATCT CACCCAAAGA 2700
ACTCATAACA TTTTAATTTA TTTAGCATTA AATTAAAACT CTACCGGTAA ACAAGCATCT CTAGGCGTAA AAAACAGGCA CTTTTTTAAA TCCCAGCTAG 2800
AATAGGCTGT ATAGGCAGAC AGTTGCAAGA CAAGGAGCGT TTTATGTCTA ACAGTCCATT TTTAAATTCT ATACGCACGG ATATGCGACA AAAAGGTTAT 2900
GCGCTGAAAA CTGAAAAAAC TTACCTGCAC TGGATTAAGC GTTTTATTCT GTTTCACAAA AAACGTCATC CTCAGACCAT GGGCAGTGAA GAGGTCAGGC 3000
TGTTTTTATC CAGCTTAGCA AACAGCAGAC ATGTAGCCAT AAACACGCAG AAAATCGCTT TAAATGCCCT AGCTTTTTTG TACAACAGGT TTTTACAACA 3100
GCCGTTGGGC GATATTGATT ATATCCCTGC AAGCAAGCCT AGACGGCTAC CCTCTGTTAT CTCTGCAAAT GAAGTGCAAC GCATTTTGCA GGTTATGGAT 3200
ACTCGCAACC AAGTTATTTT TACGCTGCTG TATGGTGCAG GTTTGCGCAT TAATGAATGC TTGCGTTTGC GGGTTAAAGA TTTTGATTTT GATAATGGCT 3300
GCATCACTGT GCATGACGGT AAGGGTGGGA AAAGCAGAAA CAGCCTACTG CCCACGCGCC TAATCCCAGC AATAAAATAA CTCATTGAGC AAGCGCGGCT 3400
TATTCAGCAA GACGACAACT TACAAGGCGT AGGGCCATCG CTGCCTTTTG CTTTAGATCA CAAATACCCT TCTGCTTATC GACAAGCGGC GTGGATGTTT 3500
GTCTTTCCCT CCAGCACGCT CTGCAACCAC CCGTATAACG GCAAATTATG CCGCCATCAT CTGCATGACT CCGTTGCGCG AAAGGCATTG AAGGCAGCCG 3600
TACAAAAAGC AGGCATCGTT AGCAAGCGTG TCACTTGTCA TACATTTCGT CACTCGTTTG CTACGCATCT ATTACAAGCG GGGCGTGATA TTCGCACTGT 3700
GCAAGAACTC TTAGGGCATA ACGATGTTAA GACCACGCAA ATCTATACGC ATGTGTTGGG TCAGCATTTT GCCGGCACCA CCAGTCCTGC GGATGGACTG 3800
ATGCTACTTA TCAATCAGTA A

Recombination Sites

Name	Coordinates	Gene	Sequence
attC qacE2 3'-end	9-14	6	TTAGAT
attC ANT(3'')-IIa core	513-572	60	CTCTAACGCT TGAGTTAAGC CGCGCCGCGA AGCGGCGTCG GCTTGAACGA ATTGTTAGAC
attC Sat-2 core	1366-1425	60	GTTTAACTCC TGAATTAAGC CGCGCCGCGA AGCGGTGTCG GCTTGAATGA ATTGTTAGGC

ORFs

ORF Summary

Gene Name	Associated TE	Coordinates	Class	Sub Class	Orientation
orfX-R721_21	In_Tn7	1-498	Passenger Gene	Hypothetical	-
ANT(3'')-IIa (ARO:3004089)	In_Tn7	574-1362	Passenger Gene	Antibiotic Resistance	-
SAT-2 (ARO:3002895)	In_Tn7	1420-1944	Passenger Gene	Antibiotic Resistance	-
dfrA1 (ARO:3002854)	In_Tn7	2039-2512	Passenger Gene	Antibiotic Resistance	-
intI2	In_Tn7	2844-3821	Integron Integrase	Class 2	+

ORF Details

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
orfX-R721_21	OrfX-R721_21	In_Tn7	498	1-498	-

Class:	Passenger Gene
Sub Class:	Hypothetical
Protein Sequence:	MRDLLKVVLS LVLAMASGQA LADLPIVLVD EARLPYDYSP SNYDISPSNY DNSISNYDNS PSNYDNSESN YDNSSSNYDN SRNGNRRLIY SANGSRTFAG YYVIANNGTT NFFSTSGKRM FYTPKGGRGV YGGKDGSFCG ALVVINGQFS LALTDNGLKI MYLSN

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
ANT(3'')-IIa (ARO:3004089)	ANT(3'')-IIa	In_Tn7	789	574-1362	-

Class:	Passenger Gene
Sub Class:	Antibiotic Resistance
Function:	antibiotic inactivation (ARO:0001004)
Target:	aminoglycoside antibiotic (ARO:0000016)
Sequence Family:	ANT(3'') (ARO:3004275)
Comment:	strict match to reference sequence for ARO:3004089 (bitscore: 522)\|\|Synonym: ANT(9)(3'')
Protein Sequence:	MREAVIAEVS TQLSEVVGVI ERHLEPTLLA VHLYGSAVDG GLKPHSDIDL LVTVTVRLDE TTRRALINDL LETSASPGES EILRAVEVTI VVHDDIIPWR YPAKRELQFG EWQRNDILAG IFEPATIDID LAILLTKARE HSVALVGPAA EELFDPVPEQ DLFEALNETL TLWNSPPDWA GDERNVVLTL SRIWYSAVTG KIAPKDVAAD WAMERLPAQY QPVILEARQA YLGQEDRLAS RADQLEEFVH YVKGEITKVV GK

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
SAT-2 (ARO:3002895)	SAT-2	In_Tn7	525	1420-1944	-

Class:	Passenger Gene
Sub Class:	Antibiotic Resistance
Function:	antibiotic inactivation (ARO:0001004)
Target:	nucleoside antibiotic (ARO:3000034)
Sequence Family:	streptothricin acetyltransferase (SAT) (ARO:3000869)
Protein Sequence:	MKISVIPEQV AETLDAENHF IVREVFDVHL SDQGFELSTR SVSPYRKDYI SDDDSDEDSA CYGAFIDQEL VGKIELNSTW NDLASIEHIV VSHTHRGKGV AHSLIEFAKK WALSRQLLGI RLETQTNNVP ACNLYAKCGF TLGGIDLFTY KTRPQVSNET AMYWYWFSGA QDDA

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
dfrA1 (ARO:3002854)	DfrA1	In_Tn7	474	2039-2512	-

Class:	Passenger Gene
Sub Class:	Antibiotic Resistance
Function:	antibiotic target replacement (ARO:0001002)
Target:	diaminopyrimidine antibiotic (ARO:3000171)
Sequence Family:	trimethoprim resistant dihydrofolate reductase dfr (ARO:3001218)
Comment:	Synonym: dfr1
Protein Sequence:	MKLSLMVAIS KNGVIGNGPD IPWSAKGEQL LFKAITYNQW LLVGRKTFES MGALPNRKYA VVTRSSFTSD NENVLIFPSI KDALTNLKKI TDHVIVSGGG EIYKSLIDQV DTLHISTIDI EPEGDVYFPE IPSNFRPVFT QDFASNINYS YQIWQKG

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
intI2	IntI2	In_Tn7	978	2844-3821	+

Class:	Integron Integrase
Sub Class:	Class 2
Transpoase Chemistry:	Tyrosine
Sequence Family:	Class 2 Integron Tyrosine Integrase
Comment:	truncated stop at codon 174
Protein Sequence:	MSNSPFLNSI RTDMRQKGYA LKTEKTYLHW IKRFILFHKK RHPQTMGSEE VRLFLSSLAN SRHVAINTQK IALNALAFLY NRFLQQPLGD IDYIPASKPR RLPSVISANE VQRILQVMDT RNQVIFTLLY GAGLRINECL RLRVKDFDFD NGCITVHDGK GGKSRNSLLP TRLIPAIK*L IEQARLIQQD DNLQGVGPSL PFALDHKYPS AYRQAAWMFV FPSSTLCNHP YNGKLCRHHL HDSVARKALK AAVQKAGIVS KRVTCHTFRH SFATHLLQAG RDIRTVQELL GHNDVKTTQI YTHVLGQHFA GTTSPADGLM LLINQ

References

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28.	Arciszewska LK, McKown RL, Craig NL. Purification of TnsB, a transposition protein that binds to the ends of Tn7. J Biol Chem. 1991 Nov 15;266(32):21736-44. PubMed ID: 1657979
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34.	May EW, Craig NL. Switching from cut-and-paste to replicative Tn7 transposition. Science. 1996 Apr 19;272(5260):401-4. doi: 10.1126/science.272.5260.401. PubMed ID: 8602527
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36.	Stellwagen AE, Craig NL. Analysis of gain-of-function mutants of an ATP-dependent regulator of Tn7 transposition. J Mol Biol. 2001 Jan 19;305(3):633-42. doi: 10.1006/jmbi.2000.4317. PubMed ID: 11152618
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38.	Arciszewska LK, Craig NL. Interaction of the Tn7-encoded transposition protein TnsB with the ends of the transposon. Nucleic Acids Res. 1991 Sep 25;19(18):5021-9. doi: 10.1093/nar/19.18.5021. PubMed ID: 1656385
39.	Arciszewska LK, Craig NL. Interaction of the Tn7-encoded transposition protein TnsB with the ends of the transposon. Nucleic Acids Res. 1991 Sep 25;19(18):5021-9. doi: 10.1093/nar/19.18.5021. PubMed ID: 1656385
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41.	Ronning DR, Li Y, Perez ZN, Ross PD, Hickman AB, Craig NL, Dyda F. The carboxy-terminal portion of TnsC activates the Tn7 transposase through a specific interaction with TnsA. EMBO J. 2004 Aug 4;23(15):2972-81. doi: 10.1038/sj.emboj.7600311. Epub 2004 Jul 15. PubMed ID: 15257292
42.	Kubo KM, Craig NL. Bacterial transposon Tn7 utilizes two different classes of target sites. J Bacteriol. 1990 May;172(5):2774-8. doi: 10.1128/jb.172.5.2774-2778.1990. PubMed ID: 2158980
43.	Peters JE, Craig NL. Tn7: smarter than we thought. Nat Rev Mol Cell Biol. 2001 Nov;2(11):806-14. doi: 10.1038/35099006. PubMed ID: 11715047
44.	Shi Q, Straus MR, Caron JJ, Wang H, Chung YS, Guarné A, Peters JE. Conformational toggling controls target site choice for the heteromeric transposase element Tn7. Nucleic Acids Res. 2015 Dec 15;43(22):10734-45. doi: 10.1093/nar/gkv913. Epub 2015 Sep 17. PubMed ID: 26384427