Mobile element type:
Transposon
Name:
Tn6238
Synonyms:
Accession:
Tn6238-KJ511462.1
Family:
Tn3
Group:
Tn3
First isolate:
Yes
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Klebsiella pneumoniae KpF7
Date of Isolation:
2015
Country:
Argentina
Molecular Source:
plasmid pMPQDC1
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-38 | + | 38 | GGGGTCTGAC GCTCAGTGGA ACGAAAACTC ACGTTAAG |
| IRR | 7958-7995 | - | 38 | GGGGTCTGAC GCTCAGTGGA ACGAAAACTC ACGTTAAG |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| attC bla OXA-9 | Tn6238 | 1621-1689 , 2530-2535 | + | 75 | CGTTCAAGGT GAGCGGACTC GCGCGGCTTT ATGCGCGAGG TCCGCTCGAG CGCAGGGTTA TGCATCTGCC ATCAA |
| attC bla OXA-9 core | Tn6238 | 1621-1689 | + | 69 | CGTTCAAGGT GAGCGGACTC GCGCGGCTTT ATGCGCGAGG TCCGCTCGAG CGCAGGGTTA TGCATCTGC |
| attC aadA | Tn6238 | 2536-2590 , 3384-3389 | + | 61 | GGTATCCTTC ATTGCTCCGC TGTGCGCTTA ATAGGTGCAT AACTTTGTTT TAGACGTTTA A |
| attC aadA core | Tn6238 | 2536-2590 | + | 55 | GGTATCCTTC ATTGCTCCGC TGTGCGCTTA ATAGGTGCAT AACTTTGTTT TAGAC |
| attC AAC(6')-Ib4 | Tn6238 | 3390-3444 , 4067-4071 | + | 60 | CGTTTGACAT GAGGGGCGGC CAAGGGCGCC AGCCCTTGGA CGTCCCCCTC GATGGTTCAA |
| attC AAC(6')-Ib core | Tn6238 | 3390-3455 | + | 66 | CGTTTGACAT GAGGGGCGGC CAAGGGCGCC AGCCCTTGGA CGTCCCCCTC GATGGAAGGG TTAGGC |
| res | Tn6238 | 4798-4918 | + | 121 | AAATGTACCT TAAATCGAAT ATCAGACACG ATGTGTCTAT TATGCCAAAA TGACGATTTA ATGGACACTC AAACGAAGCC GTTTTACTAT GTCTGATAAT TTATAATATT TCGAACGGTT G |
| res_site_III | Tn6238 | 4801-4823 | + | 23 | TGTACCTTAA ATCGAATATC AGA |
| res_site_II | Tn6238 | 4829-4864 | + | 36 | TGTGTCTATT ATGCCAAAAT GACGATTTAA TGGACA |
| res_site_I | Tn6238 | 4887-4915 | + | 29 | TGTCTGATAA TTTATAATAT TTCGAACGG |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| bla TEM-1 (ARO:3000873) | Tn6238 | 148-1008 | - | Passenger Gene | Antibiotic Resistance |
| tnpR_p | Tn6238 | 1191-1509 | - | Accessory Gene | Resolvase |
| bla OXA-9 (ARO:3001404) | Tn6238 | 1708-2547 | - | Passenger Gene | Antibiotic Resistance |
| aadA (ARO:3002601) | Tn6238 | 2592-3380 | - | Passenger Gene | Antibiotic Resistance |
| AAC(6')-Ib10 (ARO:3002581) | Tn6238 | 3450-4004 | - | Passenger Gene | Antibiotic Resistance |
| tnpR | Tn6238 | 4238-4795 | - | Accessory Gene | Resolvase |
| tnpA | Tn6238 | 4924-7962 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | bla TEM-1 (ARO:3000873) | Bla TEM-1 | Tn6238 | 286 | 148-1008 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antibiotic Resistance | ||||||||||
| Function: | antibiotic inactivation (ARO:0001004) | ||||||||||
| Sequence Family: | TEM beta-lactamase (ARO:3000014) | ||||||||||
| Target: | penem (ARO:3003706)||cephalosporin (ARO:0000032)||monobactam (ARO:0000004)||penam (ARO:3000008) | ||||||||||
| Comment: | perfect match to reference sequence for ARO:3000873||Synonyms: TEM-98, RTEM-1 | ||||||||||
| Protein Sequence: | MSIQHFRVAL IPFFAAFCLP VFAHPETLVK VKDAEDQLGA RVGYIELDLN SGKILESFRP EERFPMMSTF KVLLCGAVLS RVDAGQEQLG RRIHYSQNDL VEYSPVTEKH LTDGMTVREL CSAAITMSDN TAANLLLTTI GGPKELTAFL HNMGDHVTRL DRWEPELNEA IPNDERDTTM PAAMATTLRK LLTGELLTLA SRQQLIDWME ADKVAGPLLR SALPAGWFIA DKSGAGERGS RGIIAALGPD GKPSRIVVIY TTGSQATMDE RNRQIAEIGA SLIKHW |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR_p | TnpR_p | Tn6238 | 106 | 1191-1509 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | C-terminal fragment | ||||||||||
| Protein Sequence: | KRV*CSGCSG SVY*RRDQYR R*YGANGGHH PVGCGTG*TP EDPRAHE*GP TGSKAERNQI WPQAYRGQER RADASSEGHW CNGNCSSAQY CPLHGL*NS* RRKGLV |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | bla OXA-9 (ARO:3001404) | Bla OXA-9 | Tn6238 | 279 | 1708-2547 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antibiotic Resistance | ||||||||||
| Function: | antibiotic inactivation (ARO:0001004) | ||||||||||
| Sequence Family: | OXA beta-lactamase (ARO:3000017) | ||||||||||
| Target: | cephalosporin (ARO:0000032)||penam (ARO:3000008) | ||||||||||
| Comment: | strictmatch to reference sequence for ARO:3001404 (bitscore: 569) | ||||||||||
| Protein Sequence: | MKDTLMKKIL LLHMLVFVSA TLPISSVASD EVETLKCTII ADAITGNTLY ETGECARRVS PCSSFKLPLA IMGFDSGILQ SPKSPTWELK PEYNPSPRDR TYKQVYPALW QSDSVVWFSQ QLTSRLGVDR FTEYVKKFEY GNQDVSGDSG KHNGLTQSWL MSSLTISPKE QIQFLLRFVA HKLPVSEAAY DMAYATIPQY QAAEGWAVHG KSGSGWLRDN NGKINESRPQ GWFVGWAEKN GRQVVFARLE IGKEKSDIPG GSKAREDILV ELPVLMGNK |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | aadA (ARO:3002601) | AadA | Tn6238 | 262 | 2592-3380 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antibiotic Resistance | ||||||||||
| Function: | antibiotic inactivation (ARO:0001004) | ||||||||||
| Sequence Family: | ANT(3'')(ARO:3004275) | ||||||||||
| Target: | aminoglycoside antibiotic (ARO:0000016) | ||||||||||
| Comment: | strict match to reference sequence for ARO:3002601 (bitscore: 520)||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 | AAC(6')-Ib10 (ARO:3002581) | AAC(6')-Ib10 | Tn6238 | 184 | 3450-4004 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antibiotic Resistance | ||||||||||
| Function: | antibiotic inactivation (ARO:0001004) | ||||||||||
| Sequence Family: | AAC(6') (ARO:3000345) | ||||||||||
| Transposase Chemistry: | aminoglycoside acetyltransferase | ||||||||||
| Target: | aminoglycoside antibiotic (ARO:0000016) | ||||||||||
| Comment: | strict match to reference sequence for ARO:3002581 (bitscore: 377) | ||||||||||
| Protein Sequence: | MTNSNDSVTL RLMTEHDLAM LYEWLNRSHI VEWWGGEEAR PTLADVQEQY LPSVLAQESV TPYIAMLNGE PIGYAQSYVA LGSGDGRWEE ETDPGVRGID QLLANASQLG KGLGTKLVRA LVELLFNDPE VTKIQTDPSP SNLRAIRCYE KAGFERQGTV TTPYGPAVYM VQTRQAFERT RSVA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | Tn6238 | 185 | 4238-4795 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Function: | resolvase||serine site-specific recombinase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | first defined as a repressor | ||||||||||
| Protein Sequence: | MRIFGYARVS TSQQSLDIQI RALKDAGVKA NRIFTDKASG SSTDREGLDL LRMKVEEGDV ILVKKLDRLG RDTADMIQLI KEFDAQGVAV RFIDDGISTD GDMGQMVVTI LSAVAQAERR RILERTNEGR QEAKLKGIKF GRRRTVDRNV VLTLHQKGTG ATEIAHQLSI ARSTVYKILE DERAS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | Tn6238 | 1012 | 4924-7962 | + |
|---|
| Class: | Transposase | ||||||||||
| Function: | transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Comment: | In frame three amino acid deletion relative to tnpA (Tn3) | ||||||||||
| Protein Sequence: | VLKKPSGREA DMPVDFLTTE QVESYGRFTG EPDELQLARY FHLDEADKEF IGKSRGDHNR LGIALQIGCV RFLGTFLTDM NHIPSGVRHF TARQLGIRDI TVLAEYGQRE NTRREHAALI RQHYQYREFA WPWTFRLTRL LYTRSWISNE RPGLLFDLAT GWLMQHRIIL PGATTLTRLI SEVREKATLR LWNKLALIPS AEQRSQLEML LGPTDCSRLS LLESLKKGPV TISGPAFNEA IERWKTLNDF GLHAENLSTL PAVRLKNLAR YAGMTSVFNI ARMSPQKRMA VLVAFVLAWE TLALDDALDV LDAMLAVIIR DARKIGQKKR LRSLKDLDKS ALALASACSY LLKEETPDES IRAEVFSYIP RQKLAEIITL VREIARPSDD NFHDEMVEQY GRVRRFLPHL LNTVKFSSAP AGVTTLNACD YLSREFSSRR QFFDDAPTEI ISQSWKRLVI NKEKHITRRG YTLCFLSKLQ DSLRRRDVYV TGSNRWGDPR ARLLQGADWQ ANRIKVYRSL GHPTDPQEAI KSLGHQLDSR YRQVAARLGE NEAVELDVSG PKPRLTISPL ASLDEPDSLK RLSKMISDLL PPVDLTELLL EINAHTGFAD EFFHASEASA RVDDLPVSIS AVLMAEACNI GLEPLIRSNV PALTRHRLNW TKANYLRAET ITSANARLVD FQATLPLAQI WGGGEVASAD GMRFVTPVRT INAGPNRKYF GNNRGITWYN FVSDQYSGFH GIVIPGTLRD SIFVLEGLLE QETGLNPTEI MTDTAGASDL VFGLFWLLGY QFSPRLADAG ASVFWRMDHD ADYGVLNDIA RGQSDPRKIV LQWDEMIRTA GSLKLGKVQA SVLVRSLLKS ERPSGLTQAI IEVGRINKTL YLLNYIDDED YRRRILTQLN RGESRHAVAR AICHGQKGEI RKRYTDGQED QLGALGLVTN AVVLWNTIYM QAALDHLRAQ GETLNDEDIA RLSPLCHGHI NMLGHYSFTL AELVTKGHLR PLKEASEAEN VA |
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1. Quiroga MP, Orman B, Errecalde L, Kaufman S, Centron D.
Characterization of Tn6238 with a new allele of aac(6')-Ib-cr.. Antimicrob Agents Chemother. 2015 May;59(5):2893-7. doi: 10.1128/AAC.03213-14. Epub 2015 Feb 17. PubMed ID:
25691640
.