LOCUS       NZ_CP135695             6211 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM2802 plasmid pMTY2802_Col1, complete
            sequence.
ACCESSION   NZ_CP135695
VERSION     NZ_CP135695.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35768982
            Assembly: GCF_032377095.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6211)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Analysis of the Plasmid-Driven Acquisition of blaCTX-M-14 in
            Escherichia coli ST131 Subclone H30
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6211)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-SEP-2023) Department of Microbiology and Infectious
            Diseases, Toho University, 5-21-16, Omori-Nishi, Ota-Ku, Tokyo
            143-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 13-SEP-2021
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM2802_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 47x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 14:56:57
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,232
            CDSs (total)                      :: 5,128
            Genes (coding)                    :: 4,903
            CDSs (with protein)               :: 4,903
            Genes (RNA)                       :: 104
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 77
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 225
            CDSs (without protein)            :: 225
            Pseudo Genes (ambiguous residues) :: 0 of 225
            Pseudo Genes (frameshifted)       :: 81 of 225
            Pseudo Genes (incomplete)         :: 171 of 225
            Pseudo Genes (internal stop)      :: 40 of 225
            Pseudo Genes (multiple problems)  :: 58 of 225
            Pseudo Genes (short protein)      :: 3 of 225
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135695.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..6211
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM2802"
                     /db_xref="taxon:562"
                     /plasmid="pMTY2802_Col1"
                     /geo_loc_name="Japan"
                     /collection_date="2006"
                     /collected_by="Toho University School of Medicine"
     gene            complement(<1..405)
                     /locus_tag="RS162_RS26100"
                     /old_locus_tag="RS162_26100"
                     /pseudo=""
     CDS             complement(<1..405)
                     /locus_tag="RS162_RS26100"
                     /old_locus_tag="RS162_26100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(449..838)
                     /locus_tag="RS162_RS26105"
                     /old_locus_tag="RS162_26105"
     CDS             complement(449..838)
                     /locus_tag="RS162_RS26105"
                     /old_locus_tag="RS162_26105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            1056..1496
                     /locus_tag="RS162_RS26110"
                     /old_locus_tag="RS162_26110"
     CDS             1056..1496
                     /locus_tag="RS162_RS26110"
                     /old_locus_tag="RS162_26110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011161230.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     gene            complement(2252..2401)
                     /locus_tag="RS162_RS26115"
                     /old_locus_tag="RS162_26115"
     CDS             complement(2252..2401)
                     /locus_tag="RS162_RS26115"
                     /old_locus_tag="RS162_26115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            2972..3130
                     /locus_tag="RS162_RS26120"
                     /old_locus_tag="RS162_26120"
     CDS             2972..3130
                     /locus_tag="RS162_RS26120"
                     /old_locus_tag="RS162_26120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     gene            3590..4405
                     /gene="sul2"
                     /locus_tag="RS162_RS26125"
                     /old_locus_tag="RS162_26125"
     ARG             3591..4402
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            4466..5269
                     /gene="aph(3'')-Ib"
                     /locus_tag="RS162_RS26130"
                     /old_locus_tag="RS162_26130"
     ARG             4467..5266
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            5269..6105
                     /locus_tag="RS162_RS26135"
                     /old_locus_tag="RS162_26135"
     CDS             5269..6105
                     /locus_tag="RS162_RS26135"
                     /old_locus_tag="RS162_26135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480968.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     ARG             5270..6102
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(2437..2610)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          2534..3139
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 aaacaggaaa cgcagctgaa acgggaagct caacacccac tgacgcatgg gttgttcagg
       61 cagtacttca tcaaccagca aggcggcact ttcggccatc cgccgcgccc cacagctcgg
      121 gcagaaaccg cgacgcttac agctgaaagc gaccaggtgc tcggcgtggc aagactcgca
      181 gcgaacccgt agaaagccat gctccagccg cccgcattgg agaaattctt caaattcccg
      241 ttgcacatag cccggcaatt cctttccctg ctctgccata agcgcagcga atgccgggta
      301 atactcgtca acgatctgat agagaagggt ttgctcgggt cggtggctct ggtaacgacc
      361 agtatcccga tcccggctgg ccgtcctggc cgccacatga ggcatgttcc gcgtccttgc
      421 aatactgtgt ttacatacag tctatcgctt agcggaaagt tcttttaccc tcagccgaaa
      481 tgcctgccgt tgctagacat tgccagccag tgcccgtcac tcccactctt acattgttcg
      541 cagtatctag gtacatgtta ttgcgtgcac cttcatgatg tataatgtta ttaatgacag
      601 cagaaagatc gacagaatta atattcttcg tacctgggac agttatcggg tgtcggccag
      661 tgatgagacc aaaggatgca gtataagatg aaccactact attatcatgg ccaccattac
      721 caccaccgtt aaaactacct cccgaacttc cagagccgct atgaccatca ttgtaggggt
      781 catttggtcc catgtgacca aaaccaccga cagtaccgct atttaactct gtactcataa
      841 aattatcctc tttgactttt aaaaacagca aaaactgtat ttataacaat gtgtttatat
      901 acagtattcg aaatactacg cccgtcaaaa ccacaccgtc aacaggtttt ttgtgtattt
      961 ttcacgcctc acgggcagcc tcagaccttt tgtgttaaaa cagtaatatg ttctgctgtt
     1021 acaatacggt acacacagga gacactgtca cttttatggc atggcacaca gttcaagaga
     1081 cactgaaatt aacaggaaag tcgcgctcgc aattatatcg tgacatggct aaaggccttg
     1141 tcagctatcg cacaggaaaa aatgatcgcc gggagttcga gaccagtgaa ctgattcggg
     1201 cctatggcga gctgcgcact tctgagacac caaaaaggca caaggaggga cactccaaat
     1261 ctgtcgttag ccaggcggaa aatgctcagc tagacgtcat tcagcagaaa ctggacgctc
     1321 tgcagcagac tgttacccta atgcttgaag acaagatggc gcgggaagca gaaaaccgcc
     1381 tgcgaaatga ggagagggaa caactacagg ccgaaattag ccgtctggct gacgcgctgg
     1441 cacaggaaaa aaagcgggga ttctggtcgc ggctgtttcg ctccggttca gagtaacagt
     1501 gcaggtgact ctgatttacc ataacatctg ttatcagcac cgcctgagag gccctcaggg
     1561 cgtttctgac gggaaaccgg taaaacaggc aacaaaccac ccgaaaaccc gccagaaacg
     1621 cgcaggctct gtttttacgg catgcatgag tatgcgcaca agtgcatagc gcggaaattc
     1681 acaccattca gccggggtaa gtcctgtttc cggcgttctt cccatccgaa aacggtgaac
     1741 ggggacgcaa tttattgcgt ggccgtgaag cgttgccggc gcagccggaa aacccgctgt
     1801 cagcacgttc aggaaggggg tgatgtacaa atggcacaga ggatgaaagt gacgtatgag
     1861 ctgaaggaat gatgtaaaag tgatgtataa gtgatgtaaa agtgatgtaa aagtgatgta
     1921 tgaactgaag gagcgatgta attctgtagt caggaagaat aacccgttca tgcaggcatg
     1981 aacgatacag tgaggaacgc tttttttgtc acgatctccc cttaacctgc gtaaatcacc
     2041 cgccatggtt gattattttt caacctcaaa atggtcatac acctaacgca gccgcgattt
     2101 tcatcgcaac tgcatgaatt aaaagaaaaa aaaggaatat ttcgttttca cgagtaatac
     2161 ccgggtatta aaaatccact gtaattacat gaaaataaag aaataaaagg taataccgga
     2221 gtattaccac gtacgcgggc aagcgaaaaa gctataacgc ttcccggccg acaggcgacc
     2281 caaaatccac aggggcatgc aggttctctt cagtaacctg cgccattaaa tcaaaaaggt
     2341 catattcgcc gggaagctgc gtatcagtcg aatccagttg ttcatcatat tcagatggca
     2401 tggggtgata tccagtagct gagaggttgt tagcgggttt cggggcgcag ccctgaacca
     2461 gtcatgtagc gctagcggag tgtatactgg cttactatgt tgccacgatt gcgaaaatca
     2521 gtgaagtgct tcatgtggca ggagaaaaaa ggcagcaccg gcgcgtcagc agaatatgcg
     2581 atacaggaga tattccgctt cctcgctcac tgactcgcta cgctcggtcg ttcggctgcg
     2641 gcgagcggta ccggcttacg gacggggacg gaaatttcct ggaagatacc aggaagacac
     2701 ttagcaaaga agagataagg ccacggcgaa gccgtttttc cataggctcc gcccccctga
     2761 caagcatcgc aaaatctgac gctcaaatca gtggtggcga aacccgacag gactataaag
     2821 atcccaggcg tttccccctg gtagctccct cgtgcgctct cctgttcctg cctttcggtt
     2881 taccggtgtc attccgctgt tatggccgcg gtttctcatt ccacgcctga cactcagttc
     2941 cgtgaaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgaccg
     3001 ctgcgccttg tccggtaact atcaacttga gtccaacccg gaaagacacg acaaaacgcc
     3061 actggcagca gccattagta acaggagtgc acgagaagat agattaagag gtcttgaagt
     3121 agaggcctga ctgcggctac actgaaagaa cagttttggt aatggcggtc tcgtgaaccc
     3181 tgttaccggg ttaagcagtt ccccaactga cttaaccttc gaacaaaccg cctccccagg
     3241 cggttttttc gtttacagag caagagatta cgattcattg aaaaggatct caagaagatc
     3301 ctttgtagat tactatcaat taatcttccg aacatgacac cagtcactgt tgattacggt
     3361 taaaccgctc cgtaacaggt ttccctcgta ttggtgactt gcagcaccaa agaagcaaaa
     3421 aagataaata tatctactta ttgagagatg atatatttat ttccaaaatg ctacagatac
     3481 atcatcatga aacggatcac cgcaaacagg ttactcgcct ggggattccc tttcgacccg
     3541 agcatccgta tgagactcat gctcgattat tattattata gaagccccca tgaataaatc
     3601 gctcatcatt ttcggcatcg tcaacataac ctcggacagt ttctccgatg gaggccggta
     3661 tctggcgcca gacgcagcca ttgcgcaggc gcgtaagctg atggccgagg gggcagatgt
     3721 gatcgacctc ggtccggcat ccagcaatcc cgacgccgcg cctgtttcgt ccgacacaga
     3781 aatcgcgcgt atcgcgccgg tgctggacgc gctcaaggca gatggcattc ccgtctcgct
     3841 cgacagttat caacccgcga cgcaagccta tgccttgtcg cgtggtgtgg cctatctcaa
     3901 tgatattcgc ggttttccag acgctgcgtt ctatccgcaa ttggcgaaat catctgccaa
     3961 actcgtcgtt atgcattcgg tgcaagacgg gcaggcagat cggcgcgagg cacccgctgg
     4021 cgacatcatg gatcacattg cggcgttctt tgacgcgcgc atcgcggcgc tgacgggtgc
     4081 cggtatcaaa cgcaaccgcc ttgtccttga tcccggcatg gggttttttc tgggggctgc
     4141 tcccgaaacc tcgctctcgg tgctggcgcg gttcgatgaa ttgcggctgc gcttcgattt
     4201 gccggtgctt ctgtctgttt cgcgcaaatc ctttctgcgc gcgctcacag gccgtggtcc
     4261 gggggatgtc ggggccgcga cactcgctgc agagcttgcc gccgccgcag gtggagctga
     4321 cttcatccgc acacacgagc cgcgcccctt gcgcgacggg ctggcggtat tggcggcgct
     4381 gaaagaaacc gcaagaattc gttaactgca cattcgggat atttctctat attcgcgctt
     4441 catcagaaaa ctgaaggaac ctccattgaa tcgaactaat attttttttg gtgaatcgca
     4501 ttctgactgg ttgcctgtca gaggcggaga atctggtgat tttgtttttc gacgtggtga
     4561 cgggcatgcc ttcgcgaaaa tcgcacctgc ttcccgccgc ggtgagctcg ctggagagcg
     4621 tgaccgcctc atttggctca aaggtcgagg tgtggcttgc cccgaggtca tcaactggca
     4681 ggaggaacag gagggtgcat gcttggtgat aacggcaatt ccgggagtac cggcggctga
     4741 tctgtctgga gcggatttgc tcaaagcgtg gccgtcaatg gggcagcaac ttggcgctgt
     4801 tcacagccta tcggttgatc aatgtccgtt tgagcgcagg ctgtcgcgaa tgttcggacg
     4861 cgccgttgat gtggtgtccc gcaatgccgt caatcccgac ttcttaccgg acgaggacaa
     4921 gagtacgccg cagctcgatc ttttggctcg tgtcgaacga gagctaccgg tgcggctcga
     4981 ccaagagcgc accgatatgg ttgtttgcca tggtgatccc tgcatgccga acttcatggt
     5041 ggaccctaaa actcttcaat gcacgggtct gatcgacctt gggcggctcg gaacagcaga
     5101 tcgctatgcc gatttggcac tcatgattgc taacgccgaa gagaactggg cagcgccaga
     5161 tgaagcagag cgcgccttcg ctgtcctatt caatgtattg gggatcgaag cccccgaccg
     5221 cgaacgcctt gccttctatc tgcgattgga ccctctgact tggggttgat gttcatgccg
     5281 cctgtttttc ctgctcattg gcacgtttcg caacctgttc tcattgcgga caccttttcc
     5341 agcctcgttt ggaaagtttc attgccagac gggactcctg caatcgtcaa gggattgaaa
     5401 cctatagaag acattgctga tgaactgcgc ggggccgact atctggtatg gcgcaatggg
     5461 aggggagcag tccggttgct cggtcgtgag aacaatctga tgttgctcga atatgccggg
     5521 gagcgaatgc tctctcacat cgttgccgag cacggcgact accaggcgac cgaaattgca
     5581 gcggaactaa tggcgaagct gtatgccgca tctgaggaac ccctgccttc tgcccttctc
     5641 ccgatccggg atcgctttgc agctttgttt cagcgggcgc gcgatgatca aaacgcaggt
     5701 tgtcaaactg actacgtcca cgcggcgatt atagccgatc aaatgatgag caatgcctcg
     5761 gaactgcgtg ggctacatgg cgatctgcat catgaaaaca tcatgttctc cagtcgcggc
     5821 tggctggtga tagatcccgt cggtctggtc ggtgaagtgg gctttggcgc cgccaatatg
     5881 ttctacgatc cggctgacag agacgacctt tgtctcgatc ctagacgcat tgcacagatg
     5941 gcggacgcat tctctcgtgc gctggacgtc gatccgcgtc gcctgctcga ccaggcgtac
     6001 gcttatgggt gcctttccgc agcttggaac gcggatggag aagaggagca acgcgatcta
     6061 gctatcgcgg ccgcgatcaa gcaggtgcga cagacgtcat actagatatc aagcgacttc
     6121 tcctatcccc tgggaacaca tcaatctcac cggagaatat cgctggccaa agccttagcg
     6181 taggattccg ccccttcccg caaacgaccc c
//
