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Internal Transposable Elements | |
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Internal Repeats | |
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| Name: Tn5501.6 |
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| Family: Tn3 Group: Tn3000 |
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| Evidence of Transposition: yes |
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| Host |
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| Host Organism: | Pseudomonas aeruginosa strain PA34 | | |
| Place of Origin: | India | Date of Isolation: | 2017 |
| | Other Geographic Information: | micro-bial keratitis patient |
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| Map |
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| Terminal Inverted Repeats (IR) |
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| IRL (Length: 38 bp) |  | GGGGTTCTAAGCCGGAACCGCCGAAAATTCCGTCAGCC |
| IRR (Length: 38 bp) | | GGGGTTCTAAGCCGGAACCGCCGAAATTTCCGTCATCC |
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| Sequence |
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--------10 --------20 --------30 --------40 --------50 --------60 --------70 --------80 --------90 -------100
GGGGTTCTAA GCCGGAACCG CCGAAAATTC CGTCAGCCGA TCAACGTGGC TTGTCCCGCG CCCGGTCGAT GGGGTGGACC CAACAGTCGT GTCACTAGCC 100
GCCATTTCGA TCACGGCAAT GCCAGCCGGA CGTCACGTCC AGATTGTTCC GGTCTGGACG AGGCCGACTG ACGTCTCGGA TGGCGGGTGG CATACAACTG 200
CTGTGACTCC TGCAGGGGGG CAGCTGCCTG ACCGGACGGC GAGCATCAGC CCATCTCACG TATTCGTCAT GTCAGCTTTG ACACTGCGCA CGCGACGGCA 300
TCCGACCCAA ACCTGACGCT GAGCGTCTCC CAGGAGCCGA CGTTACTTCG CATGAAACGC ACCTATCGCC TTCAGCGCGT CTTTGGCTAT CTGCGTTCGT 400
AGGGGCAGGT CATTTGCGTC GCGGGTAGCA AGATTCAGGG CAAACAGCCA AACATCGTCC TGTGCTTCAA CATAGCCAAC ATACCAACCC ACCGAGGGAG 500
TGATGCGGGT CGCCCAACCC GTTTTTGCAT AAAGGCGATA CTGGGCATTC TCATCGGCGA ACATGACTTT CTTCAGGGAA TCATAGCTGC TCGCTTTGAA 600
CGGTAGTTTT CGCTCAACAA CCCGTCGGAG AAAGGCAACC TGTTCTTCCG CGCTGATCGT CAAAGAGCCA TCCAGCCAAA ACTCCGTTCC ATTGAAGGGT 700
TCCAGTAAAT GACCATAGTT TGTCTGTTGA ATATAGGCTG GGTACTTGAG TGCCCCCACT CGAAGGGCAA TCTGCTGGTA GCACCAGACA CAACTCACTT 800
TAAACGCACT GTCTAGAGTC TGGTCCTGGT TCCAATTCGC AATCGAATAC TGGGTACCGT TCCAGTGAAA GATCTGGTTC TCACCTGAAA TGGCGCCCTC 900
TTCGAGAGCA ATCAAGGTAT TGAGTACCTT GAACGTGGAA GCTGCCGGGT ATCGTTGTTG CGCACGAGGA TCGTTGTGAA CCAAGCGCTG TCTGGTGGTT 1000
AGAGACTCGA TGACGATGGT CCCATCGACT CCTGCCCTCT GGAAAAGCTG GGCGATTGCC TGGTTCTCTG CACGCGCTGA GAGTGCGATA AAGAGACCAA 1100
AGGCCAGAAG GGTGCTCTTC AGCATAGGGA AATCGGACTC ACGGGGTTGT TATCGGCGCA CAATGGTAGT GAATTCAAAC GTAAGAATCA ATGGCCGCTT 1200
CTGGCCGCCT GCCGCCGACC GCGGTCTGGC TCGAAAGCAG TCTGTCAACG CGCCGTTTCA TCGTTGCCAT GATCGTTTCT TAATCGCGCA CAGGCGGCCA 1300
CAGGCGGGCC GTGTGAACCA GCGTCAGTAT CCACACCGTT TCGCCGTCGA TCTGGTACAC CAGGCGATAG CTTTCGTGCG GGATCAACTC GCGGGTCCCG 1400
GGAATCTTTC CCGGCTTGCC CAGCATGGGG TGCTGGATCA ACCGGGCGGC CGCGTCGCTG AAAATCTCAT CCATCCGGGC CGCCGCGCGC GGATTGTCGG 1500
CTGCGATGTA GTCCCACACA TCGGCACGGT CTTGCTGCGC TTCGGGCGTC CAAACAACCC TCACGCCTGG CTCGCCACAC TGGCACGCCG TGCGGCGAAT 1600
TCGGCCTCAA CTTCATCGTT CGACCGCCCC AATCCAGCGC GCATCGAAGC CCGGCCGGCT TCGACCTTGC GGCGCAGGAA CTCGTCGTAC TCGCGCGACT 1700
CGCGCTGGCG CTGAACGAAC TCGCGCATCA GTTCGCGCAG CACTTGCGAC GCCGGGCGAT GGGCCGCCTC GGCTTCGGCC ATAAACTCGG CGCGCAACTC 1800
AGGCTCCAGC TTCATCGTGA AAACAGCTTG TTTTGACATG ATCGGGGCCT CCTTCCACTT GATACTAACG AAGTGTATAC GTCGTCAAGA CTAAGCGCTA 1900
CGCACAGAAC GCTGCAAGGC GGGCCTGCGC TATGCCAAGG CCTGTCGGAA AACATTTGTT TTGCGACAGG CCTTCAACAG TCCTCTGCAC CAACCTCCGA 2000
GTGGCCGCAA AATTGTGCGG AAAACTCTGT CGCCAGACGC TACCATGCGG AAACCCCTTC TTGATGGTTT TCCGATTATG TTGGTAGGTT ACATGCGCGT 2100
GTCGTCGGAT TCCGACCGCC AGAGCACGAA CTTGCAGCGC GATGCGCTGC TCGCCGTCGG CGTCGATGCG CGGCATCTGT TCGAGGATCA TGCTTCCGGC 2200
GCGAAGGACG ACCGCGCGGG CCTGGCGCGG GCGCTCGAAT TCGTTCGCCC TGGCGACGTG TTGGTCGTGT GGAAGCTCGA CCGGCTCGGC CGTTCGTTGT 2300
CGCACCTGCT CGCCATCGTG ACCTCGCTCA AGGAAAAGCA GGTGGCGTTC CGCTCGCTGA CGGAGAACCT GGATACCACG ACGCCCTCGG GCGAGTTTCT 2400
GTTCCAGGTG TTCGGCGCGC TCGCGCAGTA CGAACGCGCC TTGATCCAGG AACGTGTCGT CGCCGGTCTG GCTGCCGCCC GCAAACGCGG CCGGATCGGC 2500
GGCCGGCCGC AGGCGATCAC CGGCGAGAAG CTGGAGGCCA TCGTCGCTGC GCTCGATGGC GGCATGTCCA AGGCGGCGGT GTGCCGCAAC TTCGGCGTCA 2600
AGCGAACCAC GCTGATCGAG ACCCTGGCAC GGGTTGGTTG GACGGGCTCT CGTGGAGCGT CATCGCGATG ACGACCAAGA GCGAACGATT GACCGTCCTG 2700
TCGGACGCCG AGCAGGAAGC CCTGTACGGC CTGCCGGACT TCGACGACGC CCAGCGGCTG GAATACTTGG CGTTGACTGA AACCGAACTG GCGCTCGCCA 2800
GCAGCCGGCC TGGTCTCCAT GCCCAGGTTT ATTGCATCTT GCAGATCGGT TACTTCAAGG CCAAGCATGC CTTCTTCCGC TTCGACTGGA GTGAGGTCGA 2900
GCACGATTGC GCCTTCGTGC TGAGCCGCTA CTTCCACGGC GAGTCCTTCG AGCACAAGCC AATCTCCAAG CACGAGCACT ACACCCAGCG CGAGTGGATT 3000
GCCGATCTGT TCGGCTACCG GCCGTGGGCG GCCGAGTTCC TGCCGCAGCT CGCGCAGCAG GCCGCGCAGA CCGTGCGACG CGACGTGATG CCGGGGTTCA 3100
TCGCCGCCGA GCTGATCGTC TGGCTAAACG AGCACAAGAT CATCCGGCCC GGCTATACCA CCCTGCAAGA GCTGGTGAGC GAAGCCCTGT CCGCCGAGCG 3200
TCGGCGGCTG GCTGGCCTGC TGTCGGAAGT GTTGGACGAA TCGGCCAAGG CCGCGCTGGG TCGGCTTCTA GTGCGTGACG ACACCCTGTC GCAATTGGCG 3300
GCGCTCAAGC AGGACGCCAA GGACTTTGGC TGGCGTCAGA TGGCCCACGA ACGCGAAAAG CGCGCCACGC TGGAGCCGCT GCACCGGATC GCCAAGGCGC 3400
TGCTGCCCAA GCTCGGCGTC TCGCAGCAGA ATCTGCTGTA CTACGCCAGC CTGGCGAACT TCTACACCGT CCACGATCTA CGCAACCTGA AGGCCGATCA 3500
GACCTACCTC TACCTGCTTT GCTATGCCTG GGTGCGCTAC CGGCAGCTTT CCGACAACCT GGTCGATGCG ATGGCCTACC ACATGAAGCA GTTGGAGGAC 3600
GAAAGCAGTG CGGGCGCAAA GCAATCCTTT GTCGCCGAGC AGGTGCGCCG TCAGCAAGAC ACACCGCAGG TCGGCCGCCT GCTGTCGCTT TACATCGACG 3700
ACAGCGTGCC CGATCCCACG CCGTTCGGCG ATGTGCGCCA GCGCGCCTAC AAAATCATGC CCCGCGATAC GCTGCAAACC ACCGCGCAGC GCATGAGCGT 3800
GAAGCCGGTG AGCAAGCTGG CTTTGCACTG GCAGGCGGTG GACGGCCTGG CTGAGCGCAT CCGCCGCCAT CTTCGGCCGC TGTATGTCGC GCTCGACCTC 3900
GCTGGCACTG ATCCGGGCAG CCCGTGGCTC GTGGCGCTGG CCTGGGCCAA GGACGTGTTC GCCAAACAGC AGCGCCTATC GCAACGGCCG CTCGCCGAAT 4000
GTCCAGCGGC CACGCTGCCG AAACGCTTGC GACCGTACCT GCTGACCTTC GATGCCGATG GCAAGCCGAC GGGCCTGCGT GCCGACCGCT ACGAGTTCTG 4100
GCTGTACCGC CAGGTCAGGA AGCGCTTCCA GTCGGGTGAA CTCTACCTCG ACGACAGCTT GCAGCACCGG CATTTTTCCG ACGAGCTGGT TTCGCTGGAT 4200
GAGAAGGCCG ACGTGCTGGC GCAGATCGAC ATCCCGTTCC TGCGGCAGCC ACTCGATGCC CAGCTCGATG CGCTCGCGAC CGAGCTGCGC TCTCAGTGGC 4300
TGGCCTTCAA CCGCGAGCTG AAGCAGGGCA AGCTGACGCA CCTGGAATAC GACAAGGACA CGCAGAAGCT GACATGGCGC AAGCCCAGGG GCGAGAACCA 4400
GAAGGCGCGC GAGAGGGCGT TCTACGAGCA ACTGCCGTTC TGCGACGTGG CCGACGTGTT CCGCTTCGTC AACGGCCAGT GCCAGTTCCT GTCGGCGCTG 4500
ACGCCTTTGC AGCCGCGCTA TGCGAAGAAG GTCGCCGACG CCGACAGCCT GATGGCGGTC ATCATCGCGC AGGCGATGAA CCACGGCAAC CAGGTCATGG 4600
CACGCACCAG CGACATCCCG TACCACGTGC TGGAGAGCGC CTACCAACAG TACCTGCGCC ACGCAACGCT GCACGCGGCC AACGACTGCA TCAGCAACGC 4700
CATCGCCGCG CTGCCGATCT TCCCGTACTA CTCGTTCGAC CTCGATGCAC TGTACGGTGC CGTCGATGGT CAGAAATTCG GCGTCGCGCG GCCGACCGTG 4800
AAAGCGCGCC ACTCGCGCAA ATACTTTGGG CGCGGCAAGG GCGTGGTCGC CTACACGCTG CTGTGCAACC ACGTGCCGCT CAACGGCTAC CTGATCGGCG 4900
CGCACGATTA CGAGGCCCAT CACGTGTTCG ACATCTGGTA TCGCAACACG TCGGACATCG TGCCGACCGC GATCACCGGC GACATGCACA GCGTCAACAA 5000
GGCCAACTTC GCTATCTTGC ACTGGTTCGG CCTGCGTTTC GAGCCGCGCT TCACCGACCT TGGCGATCAG TTGAAGGAAC TCTACAGTGC CGACGATCCG 5100
GCGCTGTACG ATCAGTGCCT GATCCGGCCG GCCGGGAGAA TCGACCGCGA TCTCATAGTC AGCGAGAAGC CGAACCTCGA CCAGATCGTC GCCACGCTCG 5200
GACTGAAGGA GATGACGCAG GGCACGCTGA TCCGCAAGCT ATGCACCTAC ACCGCGCCGA ACCCGACGCG GCGCGCGGTG TTCGAGTTCG ACAAGCTCAT 5300
CCGCAGCATC TACACGCTGC GCTACCTGCG CGATCCGCAA CTGGAGCGCA ACGTGCACCG CTCACAGAAC CGCATCGAGT CCTATCACCA GCTACGCTCG 5400
ACCATCGCCC AGGTCGGCGG CAAGAAGGAA TTGACCGGGC GCACCGACAT CGAAATTGAG ATCAGCAACC AGTGCGCCAG GCTGATCGCC AACGCGGTCA 5500
TCTTCTACAA CTCGGCCATC CTCTCGCGGC TGCTGATGAA TTACGAGGCG AGCGGCAACG CCAAGGCGCA CGCTCTCCTG ACCCAGATAT CGCCGGCGGC 5600
CTGGCGGCAC ATCCTGCTGA ACGGGCATTA CACCTTCCAG AGCGACGGCA AGATGATCGA CCTGGATGCG CTCGTGGCGG GCCTGGAGCT GGGATGACGG 5700
AAATTTCGGC GGTTCCGGCT TAGAACCCC
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| Recombination Sites |
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| Name |
Coordinates |
Gene |
Sequence |
| res |
1940-2070 |
131 |
GCCTGTCGGA AAACATTTGT TTTGCGACAG GCCTTCAACA GTCCTCTGCA CCAACCTCCG
AGTGGCCGCA AAATTGTGCG GAAAACTCTG TCGCCAGACG CTACCATGCG GAAACCCCTT
CTTGATGGTT T |
| res_site_I |
1940-1968 |
29 |
GCCTGTCGGA AAACATTTGT TTTGCGACA |
| res_site_II |
2002-2045 |
44 |
TGGCCGCAAA ATTGTGCGGA AAACTCTGTC GCCAGACGCT ACCA |
| res_site_III |
2046-2070 |
25 |
TGCGGAAACC CCTTCTTGAT GGTTT |
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| ORFs |
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| Gene Name |
Associated TE |
Coordinates |
Class |
Sub Class |
Orientation |
| NPS-1 (ARO:3004239) |
Tn5501.6 |
343-1125 |
Passenger Gene |
Antibiotic Resistance |
- |
| parE |
Tn5501.6 |
1280-1564 |
Passenger Gene |
Toxin |
- |
| parD |
Tn5501.6 |
1561-1839 |
Passenger Gene |
Antitoxin |
- |
| tnpR |
Tn5501.6 |
2093-2671 |
Accessory Gene |
Resolvase |
+ |
| tnpA |
Tn5501.6 |
2668-5697 |
Transposase |
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+ |
| Gene Name |
Protein Name |
Associated TE |
Gene Length |
Coordinates |
Strand |
| NPS-1 (ARO:3004239) |
NPS-1 |
Tn5501.6 |
783 |
343-1125 |
- |
| Class: | Passenger Gene |
| Sub Class: | Antibiotic Resistance |
| Function: | antibiotic inactivation (ARO:0001004) |
| Target: | cephalosporin (ARO:0000032)||penam (ARO:3000008) |
| Sequence Family: | NPS beta-lactamase (ARO:3004240) |
| Comment: | 100% match to reference sequence ARO:3004239 (bit score: 538) |
Protein Sequence:
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MLKSTLLAFG LFIALSARAE NQAIAQLFQR AGVDGTIVIE SLTTRQRLVH NDPRAQQRYP AASTFKVLNT LIALEEGAIS GENQIFHWNG TQYSIANWNQ
DQTLDSAFKV SCVWCYQQIA LRVGALKYPA YIQQTNYGHL LEPFNGTEFW LDGSLTISAE EQVAFLRRVV ERKLPFKASS YDSLKKVMFA DENAQYRLYA
KTGWATRITP SVGWYVGYVE AQDDVWLFAL NLATRDANDL PLRTQIAKDA LKAIGAFHAK
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| Gene Name |
Protein Name |
Associated TE |
Gene Length |
Coordinates |
Strand |
| parE |
ParE |
Tn5501.6 |
285 |
1280-1564 |
- |
| Class: | Passenger Gene |
| Sub Class: | Toxin |
| Target: | DNA gyrase |
| Sequence Family: | ParE_toxin (Pfam:PF05016) |
Protein Sequence:
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VRVVWTPEAQ QDRADVWDYI AADNPRAAAR MDEIFSDAAA RLIQHPMLGK PGKIPGTREL IPHESYRLVY QIDGETVWIL TLVHTARLWP PVRD
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| Gene Name |
Protein Name |
Associated TE |
Gene Length |
Coordinates |
Strand |
| parD |
ParD |
Tn5501.6 |
279 |
1561-1839 |
- |
| Class: | Passenger Gene |
| Sub Class: | Antitoxin |
| Sequence Family: | parD (PDB:4Q2U) |
| Comment: | RelB |
Protein Sequence:
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MSKQAVFTMK LEPELRAEFM AEAEAAHRPA SQVLRELMRE FVQRQRESRE YDEFLRRKVE AGRASMRAGL GRSNDEVEAE FAARRASVAS QA
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| Gene Name |
Protein Name |
Associated TE |
Gene Length |
Coordinates |
Strand |
| tnpR |
TnpR |
Tn5501.6 |
579 |
2093-2671 |
+ |
| Class: | Accessory Gene |
| Sub Class: | Resolvase |
| Transpoase Chemistry: | Serine |
| Sequence Family: | Serine Site-Specific Recombinase |
Protein Sequence:
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MRVSSDSDRQ STNLQRDALL AVGVDARHLF EDHASGAKDD RAGLARALEF VRPGDVLVVW KLDRLGRSLS HLLAIVTSLK EKQVAFRSLT ENLDTTTPSG
EFLFQVFGAL AQYERALIQE RVVAGLAAAR KRGRIGGRPQ AITGEKLEAI VAALDGGMSK AAVCRNFGVK RTTLIETLAR VGWTGSRGAS SR
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| Gene Name |
Protein Name |
Associated TE |
Gene Length |
Coordinates |
Strand |
| tnpA |
TnpA |
Tn5501.6 |
3030 |
2668-5697 |
+ |
| Class: | Transposase |
| Transpoase Chemistry: | DDE |
Protein Sequence:
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MTTKSERLTV LSDAEQEALY GLPDFDDAQR LEYLALTETE LALASSRPGL HAQVYCILQI GYFKAKHAFF RFDWSEVEHD CAFVLSRYFH GESFEHKPIS
KHEHYTQREW IADLFGYRPW AAEFLPQLAQ QAAQTVRRDV MPGFIAAELI VWLNEHKIIR PGYTTLQELV SEALSAERRR LAGLLSEVLD ESAKAALGRL
LVRDDTLSQL AALKQDAKDF GWRQMAHERE KRATLEPLHR IAKALLPKLG VSQQNLLYYA SLANFYTVHD LRNLKADQTY LYLLCYAWVR YRQLSDNLVD
AMAYHMKQLE DESSAGAKQS FVAEQVRRQQ DTPQVGRLLS LYIDDSVPDP TPFGDVRQRA YKIMPRDTLQ TTAQRMSVKP VSKLALHWQA VDGLAERIRR
HLRPLYVALD LAGTDPGSPW LVALAWAKDV FAKQQRLSQR PLAECPAATL PKRLRPYLLT FDADGKPTGL RADRYEFWLY RQVRKRFQSG ELYLDDSLQH
RHFSDELVSL DEKADVLAQI DIPFLRQPLD AQLDALATEL RSQWLAFNRE LKQGKLTHLE YDKDTQKLTW RKPRGENQKA RERAFYEQLP FCDVADVFRF
VNGQCQFLSA LTPLQPRYAK KVADADSLMA VIIAQAMNHG NQVMARTSDI PYHVLESAYQ QYLRHATLHA ANDCISNAIA ALPIFPYYSF DLDALYGAVD
GQKFGVARPT VKARHSRKYF GRGKGVVAYT LLCNHVPLNG YLIGAHDYEA HHVFDIWYRN TSDIVPTAIT GDMHSVNKAN FAILHWFGLR FEPRFTDLGD
QLKELYSADD PALYDQCLIR PAGRIDRDLI VSEKPNLDQI VATLGLKEMT QGTLIRKLCT YTAPNPTRRA VFEFDKLIRS IYTLRYLRDP QLERNVHRSQ
NRIESYHQLR STIAQVGGKK ELTGRTDIEI EISNQCARLI ANAVIFYNSA ILSRLLMNYE ASGNAKAHAL LTQISPAAWR HILLNGHYTF QSDGKMIDLD
ALVAGLELG
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| References |
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