Mobile element type:  Transposon
Name:  TnCfrpOZ172
Synonyms:  Tn7154
Accession:  TnCfrpOZ172-CP016763.1
Family:  Tn3
Group:  Tn21
First isolate:  Yes
Partial:  ND
Evidence of transposition:  Yes

Host Organism:  Citrobacter freundii strain B38
Date of Isolation:  2001
Country:  China
Molecular Source:  plasmid pOZ172

Name Coordinates Direction Length Sequence
IRL 1-38 + 38 GGGGGAACCG CAGAATTCGG AAAAAATCGT ACGCTAAG
IRR 14670-14706 - 37 GGGGAGCCCG CAGAATTCGG AAAAAATCGT ACGCTAA

Name Associated TE Coordinates Orientation Length Sequence
res_site_I TnCfrpOZ172 1886-1925 + 40 GCGCATGTCA ATCTAGGCTA TACCCTAACT TGATGTCAGG
attI In_TnCfrpOZ172 3269-3324 + 56 TGATGTTATG GAGCAGCAAC GATGTTACGC AGCAGGGCAG TCGCCCTAAA ACAAAG
attC bla IMP-4 core In_TnCfrpOZ172 4084-4216 + 133 TTCTAACAAG TCGTTGCAGC ATCGTGCGCT GCGCGCACTG GACAGTTTTT AAGTCGCGGT TTTATGGTTT TGCTTCGCAA AAATATTCCA TAAAACCACA ACTTAAAAAC TGCCGCTGAA CTCGGCGTTA GAT
attC-qacE2 In_TnCfrpOZ172 4211-4216 , 4655-4747 + 99 TTAGATATCT AACCATTCCG TCGAGAGGGA CCGCCCACAA GCTGCGCTTG CGGGTTCCCT TCGCGGCTTC GCCGCTACGG CGGCCCCTCA CGTCAAACG
attC qacE2 core In_TnCfrpOZ172 4655-4747 + 93 ATCTAACCAT TCCGTCGAGA GGGACCGCCC ACAAGCTGCG CTTGCGGGTT CCCTTCGCGG CTTCGCCGCT ACGGCGGCCC CTCACGTCAA ACG
attC AAC(6')-Ib10 In_TnCfrpOZ172 4747-4753 , 5321-5386 + 73 GTTAGGCGCC TAACCCTTCC ATCGAGGGGG ACGTCCAAGG GCTGGCGCCC TTGGCCGCCC CTCATGTCAA ACG
attC AAC(6')-Ib core In_TnCfrpOZ172 5321-5386 + 66 GCCTAACCCT TCCATCGAGG GGGACGTCCA AGGGCTGGCG CCCTTGGCCG CCCCTCATGT CAAACG
attC apaA15 In_TnCfrpOZ172 5387-5393 , 6197-6304 + 115 TTAGACCGTC TAACAATTCG TTCAAGCCGA GATCGCTTCG CGGCCGCGGA GTTGTTCTGT AAATTGTCAC AACGCCGCGG CCGCAAAGCG CTCCGGCTTA ACTCAGGCGT TGAAC
attC aphA15 core In_TnCfrpOZ172 6197-6304 + 108 GTCTAACAAT TCGTTCAAGC CGAGATCGCT TCGCGGCCGC GGAGTTGTTC TGTAAATTGT CACAACGCCG CGGCCGCAAA GCGCTCCGGC TTAACTCAGG CGTTGAAC
res In_TnCfrpOZ172 7031-7065 + 35 ACCCGTCACG TATACGTTCG ATTATGTGAC AGTGT
r1 In_TnCfrpOZ172 7033-7046 - 14 CGTATACGTG ACGG
r2 In_TnCfrpOZ172 7049-7062 + 14 CGATTATGTG ACAG
r3 In_TnCfrpOZ172 7093-7106 - 14 GGGTTAAGTG ACAG
r4 In_TnCfrpOZ172 7144-7157 + 14 TCGTAATGTG ACAA
r5 In_TnCfrpOZ172 7149-7162 - 14 AGTTTTTGTC ACAT
r6 In_TnCfrpOZ172 7194-7208 + 15 GCGCAAACGT TCCAG
res_site_III TnCfrpOZ172 11051-11081 + 31 CGAAGGTTAT AGATTTCAGC CTGACAGAAA T

ORF Summary
Name Associated TE Coordinates Orientation Class Subclass
mcp TnCfrpOZ172 190-1767 - Passenger Gene Other
intI1 In_TnCfrpOZ172 2175-3188 - IntegronIntegrase Class 1
bla IMP-4 (ARO:3002195) In_TnCfrpOZ172 3341-4081 + Passenger Gene Antibiotic Resistance
qacL (ARO:3005098) In_TnCfrpOZ172 4313-4645 + Passenger Gene Antibiotic Resistance
AAC(6')-Ib4 (ARO:3002577) In_TnCfrpOZ172 4772-5326 + Passenger Gene Antibiotic Resistance
aphA15 (ARO:3004675) In_TnCfrpOZ172 5397-6191 + Passenger Gene Antibiotic Resistance
tniC In_TnCfrpOZ172 6401-7024 - Accessory Gene Resolvase
tniQ In_TnCfrpOZ172 7086-8303 - AccessoryGene Target Site Selection
tniB In_TnCfrpOZ172 8300-9208 - Accessory Gene
tniA In_TnCfrpOZ172 9211-10890 - Transposase
tnpR TnCfrpOZ172 11143-11703 + Accessory Gene Resolvase
tnpA TnCfrpOZ172 11707-14673 + Transposase
ORF Details
Gene Name Protein Name Associated TE Gene Length Coordinates Strand
mcp Mcp TnCfrpOZ172 525 190-1767 -
Class: Passenger Gene
Subclass: Other
Comment: methyl-accepting chemotaxis protein
Protein Sequence: MRQNLPVTGR NLELPKDANI LSTTSPQSHI TYVNPDFIKI SGFTEEELLG QPHNIVRHPD MPPAAFEHMW STLKSGRSWM GLVKNRCKNG DHYWVSAYVT PIAKNGSIVE YQSVRTKPEP EQVLAAEKLY AQLRSGKAAR PKLAASFSVK ILLLIWGSII SSAMAAGMLT DTSISSLLLA TLMSGSLSSV SVLAILSPLG RLVERARNIS NNPLSQSLYT GRTDEFGQIE FALRMMQAET GAIVGRIGDA SNRLSEHTRG LLKDIESSNV LTVEQQAETD QIATAVNQMV ASIQEVASNA QHAADAAGRA DTETASGQRL VAHTSQSITA LEGEIRQATQ VIHELEGQSN EISKVLDVIR GIAEQTNLLA LNAAIEAARA GEQGRGFAVV ADEVRSLAAR TQQSTTDIQS MISALQERAQ SAVTVMEQSS RQAHTSVAHA EEAATALDGI GQRVNEITDM NAQIATAVEQ QGAVSEDINR SIINIRDAAD TNVQTGQNNL QSAKSVAQLT SALSELAKQF WEKRG

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
intI1 IntI1 In_TnCfrpOZ172 337 2175-3188 -
Class: IntegronIntegrase
Subclass: Class 1
Sequence Family: Class 1 Integron Tyrosine Integrase
Transposase Chemistry: Tyrosine
Protein Sequence: MKTATAPLPP LRSVKVLDQL RERIRYLHYS LPTEQAYVNW VRAFIRFHGV RHPATLGSSE VEAFLSWLAN ERKVSVSTHR QALAALLFFY GKVLCTDLPW LQEIGRPRPS RRLPVVLTPD EVVRILGFLE GEHRLFAQLL YGTGMRISEG LQLRVKDLDF DHGTIIVREG KGSKDRALML PESLAPSLRE QLSRARAWWL KDQAEGRSGV ALPDALERKY PRAGHSWPWF WVFAQHTHST DPRSGVVRRH HMYDQTFQRA FKRAVEQAGI TKPATPHTLR HSFATALLRS GYDIRTVQDL LGHSDVSTTM IYTHVLKVGG AGVRSPLDAL PPLTSER

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
bla IMP-4 (ARO:3002195) Bla IMP-4 In_TnCfrpOZ172 246 3341-4081 +
Class: Passenger Gene
Subclass: Antibiotic Resistance
Function: antibiotic inactivation (ARO:0001004)
Sequence Family: IMP beta-lactamase (ARO:3000020)
Target: carbapenem (ARO:0000020)||cephalosporin (ARO:0000032)||cephamycin (ARO:0000044)||penam (ARO:3000008)||penem (ARO:3003706)
Comment: strict match to reference sequence for (ARO:3002195) (bitscore: 497)||Synonyms:
Protein Sequence: MSKLSVFFIF LFCSIATAAE PLPDLKIEKL DEGVYVHTSF EEVNGWGVVP KHGLVVLVDA EAYLIDTPFT AKDTEKLVTW FVERGYKIKG SISSHFHSDS TGGIEWLNSQ SIPTYASELT NELLKKDGKV QAKNSFGGVN YWLVKNKIEV FYPGPGHTPD NLVVWLPERK ILFGGCFIKP YGLGNLGDAN LEAWPKSAKL LISKYGKAKL VVPSHSEAGD ASLLKLTLEQ AVKGLNESKK PSKLSN

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
qacL (ARO:3005098) QacL In_TnCfrpOZ172 110 4313-4645 +
Class: Passenger Gene
Subclass: Antibiotic Resistance
Function: antibiotic efflux (ARO:0010000)
Sequence Family: small multidrug resistance (SMR) antibiotic efflux pump (ARO:0010003)
Target: disinfectingagents and antiseptics (ARO:3005386)
Comment: subunit of the qac multidrug efflux pump||loose match to reference sequence for ARO:3005098 (bitscore:172)
Protein Sequence: MKNWLFLATS IIFEVIATSA LKSSEGFTRL VPSFIVVAGY AAAFYFLSLT LKSIPVGIAY AVWSGLGIVL VTAIAWVLHG QKLDMWGFVG VGFIISGVAV LNLLSKASVH

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
AAC(6')-Ib4 (ARO:3002577) AAC(6')-Ib4 In_TnCfrpOZ172 184 4772-5326 +
Class: Passenger Gene
Subclass: Antibiotic Resistance
Function: antibiotic inactivation (ARO:0001004)
Sequence Family: AAC(6') (ARO:3000345)
Target: aminoglycoside antibiotic (ARO:0000016)
Comment: strict match to reference sequence for ARO:3002577 (bitscore: 380)
Protein Sequence: MTNSNDSVTL RLMTEHDLAM LYEWLNRSHI VEWWGGEEAR PTLADVQEQY LPSVLAQESV TPYIAMLNGE PIGYAQSYVA LGSGDGWWEE ETDPGVRGID QSLANASQLG KGLGTKLVRA LVELLFNDPE VTKIQTDPSP SNLRAIRCYE KAGFERQGTV TTPDGPAVYM VQTRQAFERT RSDA

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
aphA15 (ARO:3004675) AphA15 In_TnCfrpOZ172 264 5397-6191 +
Class: Passenger Gene
Subclass: Antibiotic Resistance
Function: antibiotic inactivation (ARO:0001004)
Sequence Family: APH(3') (ARO:3000126)
Target: aminoglycoside antibiotic (ARO:0000016)
Comment: strict match to reference sequence for ARO:3004675 (bitscore: 543)
Protein Sequence: MTVALDEVSE LKNLLSPLLD ECTFEEVEYG QSDARVIRVL FPDRNTAYLK YASGSSAQEI LQEHQRTRWL RTRALVPEVI SYVSTSTVTI LLTKALIGHN AADAADADPV IVVAEMARAL RDLHSISPDD CPFDERLHLR LKLASGRLEA GLVDEEDFDH ARQGMLARDV YEQLFIQMPG AEQLVVTHGD ACPENFIFQG NAFVGFIDCG RVGLADKYQD LALASRNIDA VFGPELTNQF FIEYGEPNPN IAKIEYYRIL DEFF

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tniC TniC In_TnCfrpOZ172 207 6401-7024 -
Class: Accessory Gene
Subclass: Resolvase
Sequence Family: Serine Site-Specific Recombinase
Transposase Chemistry: Serine
Comment: identical to tniR (Tn1721)
Protein Sequence: MLIGYMRVSK ADGSQSTNLQ RDALIAAGVS LAHLYEDLAS GRRDDRPGLA ACLKALREGD TLIVWKLDRL GRDLRHLINT VHDLTARSVG LKVLTGHGAA VDTTTAAGKL VFGIFAALAE FERELISERT VAGLISARAR GRKGGRPFKM TAAKLRLAMA SMGQPETKVG DLCEELGITR QTLYRHVSPK GELRPDGVKL LSLGSAA

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tniQ TniQ In_TnCfrpOZ172 405 7086-8303 -
Class: AccessoryGene
Subclass: Target Site Selection
Function: is needed for transposition of Tn5053
Protein Sequence: MKSAPRWPLH PAPKEGEALS SWLNRVAACY QMDVHELLAH DLGHSQLDDL DTAPSLSLLT ALCQRSGVEL ERLRSMSLAG WVPWLLDSLD DSVPAALETY TFQCAVLLPK RTRKVRSITR WRAWLPSQTI RRACPQCLND PTNQAVLLVW QLPLMLSCPQ HGCWLESYWG MPGRYLQWEI ADAAPRPADD AIACMDRRTW QALTTGFVEL PRRRVHAGLW FRLLRTLLDE LNTPLSHCGS CSASIRHVWE RCGHPLRAGQ SLWRPYEILA PAVQWQMLEA AATAITLIES KALIPRGEQA ALFQTEPHTG FTNGLPAKVP KPEPINHWQR AAQAIDEAII EARHNPETAR LLFTLASYGR RDPESLERLR ATFTKEGIPP EFLSHYEPEW PFAGLRLNDG LSDSF

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tniB TniB In_TnCfrpOZ172 302 8300-9208 -
Class: Accessory Gene
Function: is needed for transposition of Tn5053
Transposase Chemistry: Serine
Comment: homologous to TnsC protein of Tn7 putative ATP-binding protein
Protein Sequence: MDEYPVIDLS HLLPAAQGLA RLPADERIQR IRADRWIGYP RAVEALNRLE TLYAWPNKQR MPNLLLVGPT NNGKSMIVEK FRRAHPVGTD ADQEHIPVLV VQMPSEPSVI RFYVALLAAM GAPLRPRPRL PEMEQLTLAL LRKVGVRMLV IDELHNVLAG NSVNRREFLN LLRFLGNELR IPLVGVGTRE AYLAIRSDDQ LENRFEPMLL PPWEANEDCC SLLASFAASL PLRRPSPIAT LDMARYLLTR SEGTIGELAH LLVAAAVAAV ESGEEAINHR TLSMADYIGP SERRRQFERE LM

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tniA TniA In_TnCfrpOZ172 559 9211-10890 -
Class: Transposase
Transposase Chemistry: DDE
Comment: homologous to TnsB of Tn7
Protein Sequence: MTSDTPPIAA QGVATLPDEA WAQARHRTEI IGPLAALEVV GHEAADEAAQ ALGLSRRQVY VLIRRARQGT GLVTDLTPGR SGGGKGKGRL PEPVERIIRE LLQKRFLTKQ KRSLAAFHRE VAQACKTQKL PVPARNTVAQ RIAGLHPAKI ARSRGGQDAA RPLQGAGGIP PEVTMPLEQV QIDHTVIDLI VVDERDRQPI GRPYLTLAID VFTRCVLGMV VTLEAPSAVS VGLCLAHAAC DKRPWLEGLN VEMDWPMSGK PRLLYLDNAA EFKSEALRRG CEQHGIRLDY RPPGQPHYGG IVERIIGTAM QMIHDELPGT TFSNPGQRGE YDSEKMATLT LRELERWLAL AVGTYHGSVH NGLLQPPAAR WAEAVERVGV PAVVTRPTAF LVDFLPVIRR TLTRTGFVID HIHYYADALK PWIARRERLP AFLIRRDPRD ISRIWVLEPE GQHYLEIHYR TLSHPAVTLW EQRQALAKLR QLGREQVDES ALFRMIGQMR EIVTTAQKAT RKARRDADRR QHLKTSEPPA KPIPPDVDMA DPQADNLPPA KPFDQIEEW

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tnpR TnpR TnCfrpOZ172 186 11143-11703 +
Class: Accessory Gene
Subclass: Resolvase
Sequence Family: Serine Site-Specific Recombinase
Transposase Chemistry: Serine
Protein Sequence: MQGHRIGYVR VSSFDQNPER QLEQTQVSKV FTDKASGKDT QRPQLEALLS FVREGDTVVV HSMDRLARNL DDLRRLVQKL TQRGVRIEFL KEGLVFTGED SPMANLMLSV MGAFAEFERA LIRERQREGI ALAKQRGAYR GRKKALSDEQ AATLRQRATA GEPKAQLARE FNISRETLYQ YLRTDD

Gene Name Protein Name Associated TE Gene Length Coordinates Strand
tnpA TnpA TnCfrpOZ172 988 11707-14673 +
Class: Transposase
Transposase Chemistry: DDE
Protein Sequence: MPRRLILSAT ERDTLLALPE SQDDLIRYYT FNDSDLSLIR QRRGDANRLG FAVQLCLLRY PGYALGTDSE LPEPVILWVA KQVQAEPASW AKYGERDVTR REHAQELRTY LQLAPFGLSD FRALVRELTE LAQQTDKGLL LAGQALESLR QKRRILPALS VIDRACSEAI ARANRRVYRA LVEPLTDSHR AKLDELLKLK AGSSITWLTW LRQAPLKPNS RHMLEHIERL KTFQLVDLPE GLGRHIHQNR LLKLAREGGQ MTPKDLGKFE PQRRYATLAA VVLESTATVI DELVDLHDRI LVKLFSGAKH KHQQQFQKQG KAINDKVRLY SRIGQALLEA KESGSDPYAA IEAVIPWDEF TESVSEAELL ARPEGFDHLH LVGENFATLR RYTPALLEVL ELRAAPAAQG VLAAVQTLRE MNADNLRKVP ADAPTAFIKP RWKPLVITPE GLDRKFYEIC ALSELKNALR SGDIWVKGSR QFRDFDDYLL PAEKFAALKR EQALPLAINP NSDQYLEERL QLLDEQLATV TRLAKDNELP DAILTESGLK ITPLDAAVPD RAQALIDQTS QLLPRIKITE LLMDVDDWTG FSRHFTHLKD GAEAKDRTLL LSAILGDAIN LGLTKMAESS PGLTYAKLSW LQAWHIRDET YSAALAELVN HQYRHAFAAH WGDGTTSSSD GQRFRAGGRG ESTGHVNPKY GSEPGRLFYT HISDQYAPFS TRVVNVGVRD STYVLDGLLY HESDLRIEEH YTDTAGFTDH VFALMHLLGF RFAPRIRDLG ETKLYVPQGV QAYPTLRPLI GGTLNIKHVR AHWDDILRLA SSIKQGTVTA SLMLRKLGSY PRQNGLAVAL RELGRIERTL FILDWLQSVE LRRRVHAGLN KGEARNSLAR AVFFNRLGEI RDRSFEQQRY RASGLNLVTA AIVLWNTVYL ERATQGLVEA GKPVDGELLQ FLSPLGWEHI NLTGDYVWRQ SRRLEDGKFR PLRMPGKP

TnCentral Accession TE Name Type Coordinates Strand Length
In_TnCfrpOZ172-CP016763.1 In_TnCfrpOZ172 integron 1973-11033 + 9061

Name Associated TE Coordinates Direction Length Sequence
IRi In_TnCfrpOZ172 1973-2005 + 33 TGTCGTTTTC AGAAGACGGC TGCACTGAAC GTC
repeat i1 In_TnCfrpOZ172 1981-1999 + 19 TCAGAAGACG GCTGCACTG
repeat i2 In_TnCfrpOZ172 2004-2022 + 19 TCAGAAGCCG ACTGCACTA
repeat i3 In_TnCfrpOZ172 2046-2064 + 19 TCAGGCAACG ACGGGCTGC
repeat i4 In_TnCfrpOZ172 2074-2092 + 19 TCAGCGGACG CAGGGAGGA
repeat t4 In_TnCfrpOZ172 10906-10924 - 19 TCAATACTCG TGTGCACCA
repeat t3 In_TnCfrpOZ172 10938-10956 - 19 TCAGGAGTCG TCTGCACCA
repeat t2 In_TnCfrpOZ172 10967-10985 + 19 TCAGGAGCCG TATGCACAC
repeat t1 In_TnCfrpOZ172 11007-11025 - 19 TCAGAAGACG ACCGCACCA
IRt In_TnCfrpOZ172 11009-11033 - 25 TGTCGTTTTC AGAAGACGAC CGCAC

1.  Hawkey PM, Xiong J, Ye H, Li H, M'Zali FH.  Occurrence of a new metallo-beta-lactamase IMP-4 carried on a conjugative plasmid in Citrobacter youngae from the People's Republic of China..  FEMS Microbiol Lett. 2001 Jan 1;194(1):53-7. doi: 10.1111/j.1574-6968.2001.tb09445.x.  PubMed ID: 11150665 .
2.  Xiong J, Deraspe M, Iqbal N, Ma J, Jamieson FB, Wasserscheid J, Dewar K, Hawkey PM, Roy PH.  Genome and Plasmid Analysis of blaIMP-4-Carrying Citrobacter freundii B38..  Antimicrob Agents Chemother. 2016 Oct 21;60(11):6719-6725. doi: 10.1128/AAC.00588-16. Print 2016 Nov.  PubMed ID: 27572407 .