TN Report

Transposon

Name: Tn6023

Family: Compound Transposon Group: IS26

Evidence of Transposition: yes

Host

Host Organism:	Salmonella enterica subsp. enterica serovar Typhimurium	Molecular Source:	plasmid pSRC125
Place of Origin:	USA	Date of Isolation:	2000
		Other Geographic Information:	bovine origin

Map

Terminal Inverted Repeats (IR)


IRR (Length: 14 bp)		GGCACTGTTGCAAA
IRR (Length: 14 bp)		GGCACTGTTGCAAA

Sequence

DNA Sequence

Length 2636

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

GGCACTGTTG CAAAGTTAGC GATGAGGCAG CCTTTTGTCT TATTCAAAGG CCTTACATTT CAAAAACTCT GCTTACCAGG CGCATTTCGC CCAGGGGATC 100
ACCATAATAA AATGCTGAGG CCTGGCCTTT GCGTAGTGCA CGCATCACCT CAATACCTTT GATGGTGGCG TAAGCCGTCT TCATGGATTT AAATCCCAGC 200
GTGGCGCCGA TTATCCGTTT CAGTTTGCCA TGATCGCATT CAATCACGTT GTTCCGGTAC TTAATCTGTC GGTGTTCAAC GTCAGACGGG CACCGGCCTT 300
CGCGTTTGAG CAGAGCAAGC GCGCGACCAT AGGCGGGCGC TTTATCCGTG TTGATGAATC GCGGGATCTG CCACTTCTTC ACGTTGTTGA GGATTTTACC 400
CAGAAACCGG TATGCAGCTT TGCTGTTACG ACGGGAGGAG AGATAAAAAT CGACAGTGCG GCCCCGGCTG TCGACGGCCC GGTACAGATA CGCCCAGCGG 500
CCATTGACCT TCACGTAGGT TTCATCCATG TGCCACGGGC AAAGATCGGA AGGGTTACGC CAGTACCAGC GCAGCCGTTT TTCCATTTCA GGCGCATAAC 600
GCTGAACCCA GCGGTAAATC GTGGAGTGAT CGACATTCAC TCCGCGTTCA GCCAGCATCT CCTGCAGCTC ACGGTAACTG ATGCCGTATT TGCAGTACCA 700
GCGTACGGCC CACAGAATGA TGTCACGCTG AAAATGCCGG CCTTTGAATG GGTTCATGTG CAGCTCCATC AGCAAAAGGG GATGATAAGT TTATCACCAC 800
CGACTATTTG CAACAGTGCC AACCCATGTT ATATTGCACA AGATAAAAAT ATATCATCAT GAACAATAAA ACTGTCTGCT TACATAAACA GTAATACAAG 900
GGGTGTTATG AGCCATATTC AACGGGAAAC GTCTTGCTCG AGGCCGCGAT TAAATTCCAA CCTGGATGCT GATTTATATG GGTATAGATG GGCTCGCGAT 1000
AATGTCGGGC AATCAGGTGC GACAATCTAT CGATTGTATG GGAAGCCCAA TGCGCCAGAG TTGTTTCTGA AACATGGCAA AGGTAGCGTT GCCAATGATG 1100
TTACAGATGA GATGGTCAGA CTAAACTGGC TGACGGCATT TATGCCTCTT CCGACCATCA AGCATTTTAT CCGTACTCCT GATGATGCAT GGTTACTCAC 1200
CACTGCGATC CCCGGGAAAA CAGCATTCCA GGTATTAGAA GAATATCCTG ATTCAGGTGA AAATATTGTT GATGCGCTGG CAGTGTTCCT GCGCCGGTTG 1300
CATTCGATTC CTGTTTGTAA TTGTCCTTTT AACAGCGATC GCGTATTTCG TCTCGCTCAG GCGCAATCAC GAATGAATAA CGGTTTGGTT GATGCTAGTG 1400
ATTTTGATGA CGAGCGTAAT GGCTGGCCTG TTGAACAAGT CTGGAAAGAA ATGCATAAGC TTTTGCCATT CTCACCGGAT TCAGTCGTCA CTCATGGTGA 1500
TTTCTCACTT GATAACCTTA TTTTTGACGA GGGGAAATTA ATAGGTTGTA TTGATGTTGG ACGAGTCGGA ATCGCAGACC GATACCAGGA TCTTGCCATC 1600
CTATGGAACT GCCTCGGTGA GTTTTCTCCT TCATTACAGA AACGGCTTTT TCAAAAATAT GGTATTGATA ATCCTGATAT GAATAAATTG CAGTTTCATT 1700
TGATGCTCGA TGAGTTTTTC TGATAGTTAG TCTTTGTAGA GACACAAACC TGAAATTCCG GACACCGCGC TTCAGGACAT CTCCCTGGAC GCCGATATCT 1800
GGCAGTATCC GGACGGGGCA CTGTTGCAAA TAGTCGGTGG TGATAAACTT ATCATCCCCT TTTGCTGATG GAGCTGCACA TGAACCCATT CAAAGGCCGG 1900
CATTTTCAGC GTGACATCAT TCTGTGGGCC GTACGCTGGT ACTGCAAATA CGGCATCAGT TACCGTGAGC TGCAGGAGAT GCTGGCTGAA CGCGGAGTGA 2000
ATGTCGATCA CTCCACGATT TACCGCTGGG TTCAGCGTTA TGCGCCTGAA ATGGAAAAAC GGCTGCGCTG GTACTGGCGT AACCCTTCCG ATCTTTGCCC 2100
GTGGCACATG GATGAAACCT ACGTGAAGGT CAATGGCCGC TGGGCGTATC TGTACCGGGC CGTCGACAGC CGGGGCCGCA CTGTCGATTT TTATCTCTCC 2200
TCCCGTCGTA ACAGCAAAGC TGCATACCGG TTTCTGGGTA AAATCCTCAA CAACGTGAAG AAGTGGCAGA TCCCACGATT CATCAACACG GATAAAGCGC 2300
CCGCCTATGG TCGCGCGCTT GCTCTGCTCA AACGCGAAGG CCGGTGCCCG TCTGACGTTG AACACCGACA GATTAAGTAC CGGAACAACG TGATTGAATG 2400
CGATCATGGC AAACTGAAAC GGATAATCAA CGCCACGCTG GGATTTAAAT CCATGAAGAC GGCTTACGCC ACCATCAAAG GTATTGAGGT GATGCGTGCA 2500
CTACGCAAAG GCCAGGCCTC AGCATTTTAT TATGGTGATC CCCTGGGCGA AATGCGCCTG GTAAGCAGAG TTTTTGAAAT GTAAGGCCTT TGAATAAGAC 2600
AAAAGGCTGC CTCATCGCTA ACTTTGCAAC AGTGCC

ORFs

ORF Summary

Gene Name	Associated TE	Coordinates	Class	Sub Class	Orientation
tnpA	IS26	53-757	Transposase		-
APH(3')-Ia (ARO:3002641)	Tn6023	908-1723	Passenger Gene	Antibiotic Resistance	+
tnpA	IS26.var1	1880-2584	Transposase		+

ORF Details

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
tnpA	TnpA	IS26	705	53-757	-

Class:	Transposase
Transpoase Chemistry:	DDE
Protein Sequence:	MNPFKGRHFQ RDIILWAVRW YCKYGISYRE LQEMLAERGV NVDHSTIYRW VQRYAPEMEK RLRWYWRNPS DLCPWHMDET YVKVNGRWAY LYRAVDSRGR TVDFYLSSRR NSKAAYRFLG KILNNVKKWQ IPRFINTDKA PAYGRALALL KREGRCPSDV EHRQIKYRNN VIECDHGKLK RIIGATLGFK SMKTAYATIK GIEVMRALRK GQASAFYYGD PLGEMRLVSR VFEM

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
APH(3')-Ia (ARO:3002641)	APH(3')-Ia	Tn6023	816	908-1723	+

Class:	Passenger Gene
Sub Class:	Antibiotic Resistance
Function:	antibiotic inactivation (ARO:0001004)
Target:	aminoglycoside antibiotic (ARO:0000016)
Sequence Family:	APH(3') (ARO:3000126)
Comment:	perfect match to reference sequence for ARO:3002641\|\|Synonyms: aphA-1, apha1-1AB, APH(3')-Ic, apha7
Protein Sequence:	MSHIQRETSC SRPRLNSNLD ADLYGYRWAR DNVGQSGATI YRLYGKPNAP ELFLKHGKGS VANDVTDEMV RLNWLTAFMP LPTIKHFIRT PDDAWLLTTA IPGKTAFQVL EEYPDSGENI VDALAVFLRR LHSIPVCNCP FNSDRVFRLA QAQSRMNNGL VDASDFDDER NGWPVEQVWK EMHKLLPFSP DSVVTHGDFS LDNLIFDEGK LIGCIDVGRV GIADRYQDLA ILWNCLGEFS PSLQKRLFQK YGIDNPDMNK LQFHLMLDEF F

Gene Name	Protein Name	Associated TE	Gene Length	Coordinates	Strand
tnpA	TnpA	IS26.var1	705	1880-2584	+

Class:	Transposase
Transpoase Chemistry:	DDE
Comment:	Has one amino acid change relative to tnpA (IS26)
Protein Sequence:	MNPFKGRHFQ RDIILWAVRW YCKYGISYRE LQEMLAERGV NVDHSTIYRW VQRYAPEMEK RLRWYWRNPS DLCPWHMDET YVKVNGRWAY LYRAVDSRGR TVDFYLSSRR NSKAAYRFLG KILNNVKKWQ IPRFINTDKA PAYGRALALL KREGRCPSDV EHRQIKYRNN VIECDHGKLK RIINATLGFK SMKTAYATIK GIEVMRALRK GQASAFYYGD PLGEMRLVSR VFEM

Internal Transposable Elements (TE)

TnCentral Accession	TE Name	Type	Coordinates	Length
IS26-X00011	IS26	Insertion Sequence	1-820	820
IS26.var1-GU562437.2	IS26.var1	Insertion Sequence	1817-2636	820

Internal Repeat Elements

Name	Associated Mobile Element	Coordinates	Sequence (Top Strand)
IRL	IS26	807-820	AAACGTTGTC ACGG
IRL	IS26.var1	1817-1830	GGCACTGTTG CAAA

References

Cain AK, Hall RM. Transposon Tn5393e carrying the aphA1-containing transposon Tn6023 upstream of strAB does not confer resistance to streptomycin. Microb Drug Resist. 2011 Sep;17(3):389-94. doi: 10.1089/mdr.2011.0037. Epub 2011 Jun 24. PubMed ID: 21702681