LOCUS       NZ_CP060943             6189 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC11 plasmid pEC11-6, complete sequence.
ACCESSION   NZ_CP060943
VERSION     NZ_CP060943.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15904655
            Assembly: GCF_022558905.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6189)
  AUTHORS   Ruan,Z.
  TITLE     Complete genome sequence of carbapenem resistant Escherichia coli
            isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6189)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2020) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022558905.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:22:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,961
            CDSs (total)                      :: 4,840
            Genes (coding)                    :: 4,599
            CDSs (with protein)               :: 4,599
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 72 of 241
            Pseudo Genes (incomplete)         :: 159 of 241
            Pseudo Genes (internal stop)      :: 52 of 241
            Pseudo Genes (multiple problems)  :: 39 of 241
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060943.1.
            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..6189
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC11"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC11-6"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2016-07-24"
                     /collected_by="Long Sun"
     gene            464..1279
                     /gene="sul2"
                     /locus_tag="H9198_RS24640"
                     /old_locus_tag="H9198_24400"
     ARG             465..1276
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="99.63"
                     /coverage="100.0"
     gene            1340..2143
                     /gene="aph(3'')-Ib"
                     /locus_tag="H9198_RS24645"
                     /old_locus_tag="H9198_24405"
     ARG             1341..2140
                     /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            2143..2979
                     /locus_tag="H9198_RS24650"
                     /old_locus_tag="H9198_24410"
     CDS             2143..2979
                     /locus_tag="H9198_RS24650"
                     /old_locus_tag="H9198_24410"
                     /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"
     gene            complement(<3086..3490)
                     /locus_tag="H9198_RS24655"
                     /old_locus_tag="H9198_24415"
                     /pseudo=""
     CDS             complement(<3086..3490)
                     /locus_tag="H9198_RS24655"
                     /old_locus_tag="H9198_24415"
                     /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(3534..3923)
                     /locus_tag="H9198_RS24660"
                     /old_locus_tag="H9198_24420"
     CDS             complement(3534..3923)
                     /locus_tag="H9198_RS24660"
                     /old_locus_tag="H9198_24420"
                     /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            4141..4581
                     /locus_tag="H9198_RS24665"
                     /old_locus_tag="H9198_24425"
     CDS             4141..4581
                     /locus_tag="H9198_RS24665"
                     /old_locus_tag="H9198_24425"
                     /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(5315..5464)
                     /locus_tag="H9198_RS24670"
                     /old_locus_tag="H9198_24430"
     CDS             complement(5315..5464)
                     /locus_tag="H9198_RS24670"
                     /old_locus_tag="H9198_24430"
                     /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"
     ARG             2144..2976
                     /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(5500..5673)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          5597..6144
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.848"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 ctgactgcgg ctacactgaa agaacagttt tggtaatggc ggtctcgtga accctgttac
       61 cgggttaagc agttccccaa ctgacttaac cttcgaacaa accgcctccc caggcggttt
      121 tttcgtttac agagcaagag attacgattc attgaaaagg atctcaagaa gatcctttgt
      181 agattactat caattaatct tccgaacatg acaccagtca ctgttgatta cggttaaacc
      241 gctccgtaac aggtttccct cgtattggtg acttgcagca ccaaagaagc aaaaaagata
      301 aatatatcta cttattgaga gatgatatat ttatttccaa aatgctacag atacatcatc
      361 atgaaacgga tcaccgcaaa caggttactc gcctggggat tccctttcga cccgagcatc
      421 cgtatgagac tcatgctcga ttattattat tatagaagcc cccatgaata aatcgctcat
      481 cattttcggc atcgtcaaca taacctcgga cagtttctcc gatggaggcc ggtatctggc
      541 gccagacgca gccattgcgc aggcgcgtaa gctgatggcc gagggggcag atgtgatcga
      601 cctcggtccg gcatccagca atcccgacgc cgcgcctgtt tcgtccgaca cagaaatcgc
      661 gcgtatcgcg ccggtgctgg acgcgctcaa ggcagatggc attcccgtct cgctcgacag
      721 ttatcaaccc gcgacgcaag cctatgcctt gtcgcgtggt gtggcctatc tcaatgatat
      781 tcgcggtttt ccagacgctg cgttctatcc gcaattggcg aaatcatctg ccaaactcgt
      841 cgttatgcat tcggtgcaag acgggcaggc agatcggcgc gaggcacccg ctggcgacat
      901 catggatcac attgcggcgt tctttgacgc gcgcatcacg gcgctgacgg gtgccggtat
      961 caaacgcaac cgccttgtcc ttgatcccgg catggggttt tttctggggg ctgctcccga
     1021 aacctcgctc tcggtgctgg cgcggttcga tgaattgcgg ctgcgcttcg atttgccggt
     1081 gcttctgtct gtttcgcgca aatcctttct gcgcgcgctc acaggccgtg gtccggggga
     1141 tgtcggggcc gcgacactcg ctgcagagct tgccgccgcc gcaggtggag ctgacttcat
     1201 ccgcacacac gagccgcgcc ccttgcgcga cgggctggcg gtattggcgg cgctgaaaga
     1261 aaccgcaaga attcgttaac tgcacattcg ggatatttct ctatattcgc gcttcatcag
     1321 aaaactgaag gaacctccat tgaatcgaac taatattttt tttggtgaat cgcattctga
     1381 ctggttgcct gtcagaggcg gagaatctgg tgattttgtt tttcgacgtg gtgacgggca
     1441 tgccttcgcg aaaatcgcac ctgcttcccg ccgcggtgag ctcgctggag agcgtgaccg
     1501 cctcatttgg ctcaaaggtc gaggtgtggc ttgccccgag gtcatcaact ggcaggagga
     1561 acaggagggt gcatgcttgg tgataacggc aattccggga gtaccggcgg ctgatctgtc
     1621 tggagcggat ttgctcaaag cgtggccgtc aatggggcag caacttggcg ctgttcacag
     1681 cctatcggtt gatcaatgtc cgtttgagcg caggctgtcg cgaatgttcg gacgcgccgt
     1741 tgatgtggtg tcccgcaatg ccgtcaatcc cgacttctta ccggacgagg acaagagtac
     1801 gccgcagctc gatcttttgg ctcgtgtcga acgagagcta ccggtgcggc tcgaccaaga
     1861 gcgcaccgat atggttgttt gccatggtga tccctgcatg ccgaacttca tggtggaccc
     1921 taaaactctt caatgcacgg gtctgatcga ccttgggcgg ctcggaacag cagatcgcta
     1981 tgccgatttg gcactcatga ttgctaacgc cgaagagaac tgggcagcgc cagatgaagc
     2041 agagcgcgcc ttcgctgtcc tattcaatgt attggggatc gaagcccccg accgcgaacg
     2101 ccttgccttc tatctgcgat tggaccctct gacttggggt tgatgttcat gccgcctgtt
     2161 tttcctgctc attggcacgt ttcgcaacct gttctcattg cggacacctt ttccagcctc
     2221 gtttggaaag tttcattgcc agacgggact cctgcaatcg tcaagggatt gaaacctata
     2281 gaagacattg ctgatgaact gcgcggggcc gactatctgg tatggcgcaa tgggagggga
     2341 gcagtccggt tgctcggtcg tgagaacaat ctgatgttgc tcgaatatgc cggggagcga
     2401 atgctctctc acatcgttgc cgagcacggc gactaccagg cgaccgaaat tgcagcggaa
     2461 ctaatggcga agctgtatgc cgcatctgag gaacccctgc cttctgccct tctcccgatc
     2521 cgggatcgct ttgcagcttt gtttcagcgg gcgcgcgatg atcaaaacgc aggttgtcaa
     2581 actgactacg tccacgcggc gattatagcc gatcaaatga tgagcaatgc ctcggaactg
     2641 cgtgggctac atggcgatct gcatcatgaa aacatcatgt tctccagtcg cggctggctg
     2701 gtgatagatc ccgtcggtct ggtcggtgaa gtgggctttg gcgccgccaa tatgttctac
     2761 gatccggctg acagagacga cctttgtctc gatcctagac gcattgcaca gatggcggac
     2821 gcattctctc gtgcgctgga cgtcgatccg cgtcgcctgc tcgaccaggc gtacgcttat
     2881 gggtgccttt ccgcagcttg gaacgcggat ggagaagagg agcaacgcga tctagctatc
     2941 gcggccgcga tcaagcaggt gcgacagacg tcatactaga tatcaagcga cttctcctat
     3001 cccctgggaa cacatcaatc tcaccggaga atatcgctgg ccaaagcctt agcgtaggat
     3061 tccgcccctt cccgcaaacg accccaaaca ggaaacgcag ctgaaacggg aagctcaaca
     3121 cccactgacg catgggttgt tcaggcagta cttcatcaac cagcaaggcg gcactttcgg
     3181 ccatccgccg cgccccacag ctcgggcaga aaccgcgacg cttacagctg aaagcgacca
     3241 ggtgctcggc gtggcaagac tcgcagcgaa cccgtagaaa gccatgctcc agccgcccgc
     3301 attggagaaa ttcttcaaat tcccgttgca catagcccgg caattccttt ccctgctctg
     3361 ccataagcgc agcgaatgcc gggtaatact cgtcaacgat ctgatagaga agggtttgct
     3421 cgggtcggtg gctctggtaa cgaccagtat cccgatcccg gctggccgtc ctggccgcca
     3481 catgaggcat gttccgcgtc cttgcaatac tgtgtttaca tacagtctat cgcttagcgg
     3541 aaagttcttt taccctcagc cgaaatgcct gccgttgcta gacattgcca gccagtgccc
     3601 gtcactccca ctcttacatt gttcgcagta tctaggtaca tgttattgcg tgcaccttca
     3661 tgatgtataa tgttattaat gacagcagaa agatcgacag aattaatatt cttcgtacct
     3721 gggacagtta tcgggtgtcg gccagtgatg agaccaaagg atgcagtata agatgaacca
     3781 ctactattat catggccacc attaccacca ccgttaaaac tacctcccga acttccagag
     3841 ccgctatgac catcattgta ggggtcattt ggtcccatgt gaccaaaacc accgacagta
     3901 ccgctattta actctgtact cataaaatta tcctctttga cttttaaaaa cagcaaaaac
     3961 tgtatttata acaatgtgtt tatatacagt attcgaaata ctacgcccgt caaaaccaca
     4021 ccgtcaacag gttttttgtg tatttttcac gcctcacggg cagcctcaga ccttttgtgt
     4081 taaaacagta atatgttctg ctgttacaat acggtacaca caggagacac tgtcactttt
     4141 atggcatggc acacagttca agagacactg aaattaacag gaaagtcgcg ctcgcaatta
     4201 tatcgtgaca tggctaaagg ccttgtcagc tatcgcacag gaaaaaatga tcgccgggag
     4261 ttcgagacca gtgaactgat tcgggcctat ggcgagctgc gcacttctga gacaccaaaa
     4321 aggcacaagg agggacactc caaatctgtc gttagccagg cggaaaatgc tcagctagac
     4381 gtcattcagc agaaactgga cgctctgcag cagactgtta ccctaatgct tgaagacaag
     4441 atggcgcggg aagcagaaaa ccgcctgcga aatgaggaga gggaacaact acaggccgaa
     4501 attagccgtc tggctgacgc gctggcacag gaaaaaaagc ggggattctg gtcgcggctg
     4561 tttcgctccg gttcagagta acagtgcagg tgactctgat ttaccataac atctgttatc
     4621 agcaccgcct gagaggccct cagggcgttt ctgacgggaa accggtaaaa caggcaacaa
     4681 accacccgaa aacccgccag aaacgcgcag gctctgtttt tacggcatgc atgagtatgc
     4741 gcacaagtgc atagcgcgga aattcacacc attcagccgg ggtaagtcct gtttccggcg
     4801 ttcttcccat ccgaaaacgg tgaacgggga cgcaatttat tgcgtggccg tgaagcgttg
     4861 ccggcgcagc cggaaaaccc gctgtcagca cgttcaggaa gggggtgatg tacaaatggc
     4921 acagaggatg aaagtgacgt atgagctgaa ggaatgatgt aaaagtgatg tataagtgat
     4981 gtatgaactg aaggagcgat gtaattctgt agtcaggaag aataacccgt tcatgcaggc
     5041 atgaacgata cagtgaggaa cgcttttttt gtcacgatct ccccttaacc tgcgtaaatc
     5101 acccgccatg gttgattatt tttcaacctc aaaatggtca tacacctaac gcagccgcga
     5161 ttttcatcgc aactgcatga attaaaagaa aaaaaaggaa tatttcgttt tcacgagtaa
     5221 tacccgggta ttaaaaatcc actgtaatta catgaaaata aagaaataaa aggtaatacc
     5281 ggagtattac cacgtacgcg ggcaagcgaa aaagctataa cgcttcccgg ccgacaggcg
     5341 acccaaaatc cacaggggca tgcaggttct cttcagtaac ctgcgccatt aaatcaaaaa
     5401 ggtcatattc gccgggaagc tgcgtatcag tcgaatccag ttgttcatca tattcagatg
     5461 gcatggggtg atatccagta gctgagaggt tgttagcggg tttcggggcg cagccctgaa
     5521 ccagtcatgt agcgctagcg gagtgtatac tggcttacta tgttgccacg attgcgaaaa
     5581 tcagtgaagt gcttcatgtg gcaggagaaa aaaggcagca ccggcgcgtc agcagaatat
     5641 gcgatacagg agatattccg cttcctcgct cactgactcg ctacgctcgg tcgttcggct
     5701 gcggcgagcg gtaccggctt acggacgggg acggaaattt cctggaagat accaggaaga
     5761 cacttagcaa agaagagata aggccacggc gaagccgttt ttccataggc tccgcccccc
     5821 tgacaagcat cgcaaaatct gacgctcaaa tcagtggtgg cgaaacccga caggactata
     5881 aagatcccag gcgtttcccc ctggtagctc cctcgtgcgc tctcctgttc ctgcctttcg
     5941 gtttaccggt gtcattccgc tgttatggcc gcggtttctc attccacgcc tgacactcag
     6001 ttccgtgaag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
     6061 ccgctgcgcc ttgtccggta actatcaact tgagtccaac ccggaaagac acgacaaaac
     6121 gccactggca gcagccatta gtaacaggag tgcacgagaa gatagattaa gaggtcttga
     6181 agtagaggc
//
