LOCUS       NZ_CP060896             6200 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC22 plasmid pEC22-5, complete sequence.
ACCESSION   NZ_CP060896
VERSION     NZ_CP060896.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15904664
            Assembly: GCF_022558725.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6200)
  AUTHORS   Ruan,Z.
  TITLE     Complete genome sequence of carbapenem resistant Escherichia coli
            isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6200)
  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_022558725.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:20:29
            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)                     :: 5,066
            CDSs (total)                      :: 4,946
            Genes (coding)                    :: 4,682
            CDSs (with protein)               :: 4,682
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 87 of 264
            Pseudo Genes (incomplete)         :: 179 of 264
            Pseudo Genes (internal stop)      :: 57 of 264
            Pseudo Genes (multiple problems)  :: 53 of 264
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060896.1.
            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..6200
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC22"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC22-5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2017-07-11"
                     /collected_by="Long Sun"
     gene            join(5799..6200,1..435)
                     /locus_tag="H9207_RS25115"
                     /old_locus_tag="H9207_24895"
     CDS             join(5799..6200,1..435)
                     /locus_tag="H9207_RS25115"
                     /old_locus_tag="H9207_24895"
                     /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="APH(6)-I family aminoglycoside
                     O-phosphotransferase"
                     /protein_id="WP_094885524.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYSGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="APH(6)-I family aminoglycoside O-phosphotransferase"
     gene            complement(<542..946)
                     /locus_tag="H9207_RS25120"
                     /old_locus_tag="H9207_24900"
                     /pseudo=""
     CDS             complement(<542..946)
                     /locus_tag="H9207_RS25120"
                     /old_locus_tag="H9207_24900"
                     /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(990..1379)
                     /locus_tag="H9207_RS25125"
                     /old_locus_tag="H9207_24905"
     CDS             complement(990..1379)
                     /locus_tag="H9207_RS25125"
                     /old_locus_tag="H9207_24905"
                     /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            1597..2037
                     /locus_tag="H9207_RS25130"
                     /old_locus_tag="H9207_24910"
     CDS             1597..2037
                     /locus_tag="H9207_RS25130"
                     /old_locus_tag="H9207_24910"
                     /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(2782..2931)
                     /locus_tag="H9207_RS25135"
                     /old_locus_tag="H9207_24915"
     CDS             complement(2782..2931)
                     /locus_tag="H9207_RS25135"
                     /old_locus_tag="H9207_24915"
                     /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            3502..3660
                     /locus_tag="H9207_RS25425"
     CDS             3502..3660
                     /locus_tag="H9207_RS25425"
                     /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            4120..4935
                     /gene="sul2"
                     /locus_tag="H9207_RS25140"
                     /old_locus_tag="H9207_24920"
     ARG             4121..4932
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            4996..5799
                     /gene="aph(3'')-Ib"
                     /locus_tag="H9207_RS25145"
                     /old_locus_tag="H9207_24925"
     ARG             4997..5796
                     /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"
     ARG             5800..6200
                     /name="APH(6)-Id"
                     /gene="APH(6)-Id"
                     /gene_name="APH(6)"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="99.25"
                     /coverage="48.2"
     ARG             2..435
                     /name="APH(6)-Id"
                     /gene="APH(6)-Id"
                     /gene_name="APH(6)"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="99.31"
                     /coverage="51.8"
     Typing          complement(2967..3140)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          3064..3669
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cagcgggcgc gcgatgatca aaacgcaggt tgtcaaactg actacgtcca cgcggcgatt
       61 atagccgatc aaatgatgag caatgcctcg gaactgcgtg ggctacatgg cgatctgcat
      121 catgaaaaca tcatgttctc cagtcgcggc tggctggtga tagatcccgt cggtctggtc
      181 ggtgaagtgg gctttggcgc cgccaatatg ttctacgatc cggctgacag agacgacctt
      241 tgtctcgatc ctagacgcat tgcacagatg gcggacgcat tctctcgtgc gctggacgtc
      301 gatccgcgtc gcctgctcga ccaggcgtac gcttatgggt gcctttccgc agcttggaac
      361 gcggatggag aagaggagca acgcgatcta gctatcgcgg ccgcgatcaa gcaggtgcga
      421 cagacgtcat actagatatc aagcgacttc tcctatcccc tgggaacaca tcaatctcac
      481 cggagaatat cgctggccaa agccttagcg taggattccg ccccttcccg caaacgaccc
      541 caaacaggaa acgcagctga aacgggaagc tcaacaccca ctgacgcatg ggttgttcag
      601 gcagtacttc atcaaccagc aaggcggcac tttcggccat ccgccgcgcc ccacagctcg
      661 ggcagaaacc gcgacgctta cagctgaaag cgaccaggtg ctcggcgtgg caagactcgc
      721 agcgaacccg tagaaagcca tgctccagcc gcccgcattg gagaaattct tcaaattccc
      781 gttgcacata gcccggcaat tcctttccct gctctgccat aagcgcagcg aatgccgggt
      841 aatactcgtc aacgatctga tagagaaggg tttgctcggg tcggtggctc tggtaacgac
      901 cagtatcccg atcccggctg gccgtcctgg ccgccacatg aggcatgttc cgcgtccttg
      961 caatactgtg tttacataca gtctatcgct tagcggaaag ttcttttacc ctcagccgaa
     1021 atgcctgccg ttgctagaca ttgccagcca gtgcccgtca ctcccactct tacattgttc
     1081 gcagtatcta ggtacatgtt attgcgtgca ccttcatgat gtataatgtt attaatgaca
     1141 gcagaaagat cgacagaatt aatattcttc gtacctggga cagttatcgg gtgtcggcca
     1201 gtgatgagac caaaggatgc agtataagat gaaccactac tattatcatg gccaccatta
     1261 ccaccaccgt taaaactacc tcccgaactt ccagagccgc tatgaccatc attgtagggg
     1321 tcatttggtc ccatgtgacc aaaaccaccg acagtaccgc tatttaactc tgtactcata
     1381 aaattatcct ctttgacttt taaaaacagc aaaaactgta tttataacaa tgtgtttata
     1441 tacagtattc gaaatactac gcccgtcaaa accacaccgt caacaggttt tttgtgtatt
     1501 tttcacgcct cacgggcagc ctcagacctt ttgtgttaaa acagtaatat gttctgctgt
     1561 tacaatacgg tacacacagg agacactgtc acttttatgg catggcacac agttcaagag
     1621 acactgaaat taacaggaaa gtcgcgctcg caattatatc gtgacatggc taaaggcctt
     1681 gtcagctatc gcacaggaaa aaatgatcgc cgggagttcg agaccagtga actgattcgg
     1741 gcctatggcg agctgcgcac ttctgagaca ccaaaaaggc acaaggaggg acactccaaa
     1801 tctgtcgtta gccaggcgga aaatgctcag ctagacgtca ttcagcagaa actggacgct
     1861 ctgcagcaga ctgttaccct aatgcttgaa gacaagatgg cgcgggaagc agaaaaccgc
     1921 ctgcgaaatg aggagaggga acaactacag gccgaaatta gccgtctggc tgacgcgctg
     1981 gcacaggaaa aaaagcgggg attctggtcg cggctgtttc gctccggttc agagtaacag
     2041 tgcaggtgac tctgatttac cataacatct gttatcagca ccgcctgaga ggccctcagg
     2101 gcgtttctga cgggaaaccg gtaaaacagg caacaaacca cccgaaaacc cgccagaaac
     2161 gcgcaggctc tgtttttacg gcatgcatga gtatgcgcac aagtgcatag cgcggaaatt
     2221 cacaccattc agccggggta agtcctgttt ccggcgttct tcccatccga aaacggtgaa
     2281 cggggacgca atttattgcg tggccgtgaa gcgttgccgg cgcagccgga aaacccgctg
     2341 tcagcacgtt caggaagggg gtgatgtaca aatggcacag aggatgaaag tgacgtatga
     2401 gctgaaggaa tgatgtaaaa gtgatgtata agtgatgtaa aagtgatgta tgaactgaag
     2461 gagcgatgta attctgtagt caggaagaat aacccgttca tgcaggcatg aacgatacag
     2521 tgaggaacgc tttttttgtc acgatctccc cttaacctgc gtaaatcacc cgccatggtt
     2581 gattattttt caacctcaaa atggtcatac acctaacgca gccgcgattt tcatcgcaac
     2641 tgcatgaatt aaaagaaaaa aaaggaatat ttcgttttca cgagtaatac ccgggtatta
     2701 aaaatccact gtaattacat gaaaataaag aaataaaagg taataccgga gtattaccac
     2761 gtacgcgggc aagcgaaaaa gctataacgc ttcccggccg acaggcgacc caaaatccac
     2821 aggggcatgc aggttctctt cagtaacctg cgccattaaa tcaaaaaggt catattcgcc
     2881 gggaagctgc gtatcagtcg aatccagttg ttcatcatat tcagatggca tggggtgata
     2941 tccagtagct gagaggttgt tagcgggttt cggggcgcag ccctgaacca gtcatgtagc
     3001 gctagcggag tgtatactgg cttactatgt tgccacgatt gcgaaaatca gtgaagtgct
     3061 tcatgtggca ggagaaaaaa ggcagcaccg gcgcgtcagc agaatatgcg atacaggaga
     3121 tattccgctt cctcgctcac tgactcgcta cgctcggtcg ttcggctgcg gcgagcggta
     3181 ccggcttacg gacggggacg gaaatttcct ggaagatacc aggaagacac ttagcaaaga
     3241 agagataagg ccacggcgaa gccgtttttc cataggctcc gcccccctga caagcatcgc
     3301 aaaatctgac gctcaaatca gtggtggcga aacccgacag gactataaag atcccaggcg
     3361 tttccccctg gtagctccct cgtgcgctct cctgttcctg cctttcggtt taccggtgtc
     3421 attccgctgt tatggccgcg gtttctcatt ccacgcctga cactcagttc cgtgaaggca
     3481 gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgaccg ctgcgccttg
     3541 tccggtaact atcaacttga gtccaacccg gaaagacacg acaaaacgcc actggcagca
     3601 gccattagta acaggagtgc acgagaagat agattaagag gtcttgaagt agaggcctga
     3661 ctgcggctac actgaaagaa cagttttggt aatggcggtc tcgtgaaccc tgttaccggg
     3721 ttaagcagtt ccccaactga cttaaccttc gaacaaaccg cctccccagg cggttttttc
     3781 gtttacagag caagagatta cgattcattg aaaaggatct caagaagatc ctttgtagat
     3841 tactatcaat taatcttccg aacatgacac cagtcactgt tgattacggt taaaccgctc
     3901 cgtaacaggt ttccctcgta ttggtgactt gcagcaccaa agaagcaaaa aagataaata
     3961 tatctactta ttgagagatg atatatttat ttccaaaatg ctacagatac atcatcatga
     4021 aacggatcac cgcaaacagg ttactcgcct ggggattccc tttcgacccg agcatccgta
     4081 tgagactcat gctcgattat tattattata gaagccccca tgaataaatc gctcatcatt
     4141 ttcggcatcg tcaacataac ctcggacagt ttctccgatg gaggccggta tctggcgcca
     4201 gacgcagcca ttgcgcaggc gcgtaagctg atggccgagg gggcagatgt gatcgacctc
     4261 ggtccggcat ccagcaatcc cgacgccgcg cctgtttcgt ccgacacaga aatcgcgcgt
     4321 atcgcgccgg tgctggacgc gctcaaggca gatggcattc ccgtctcgct cgacagttat
     4381 caacccgcga cgcaagccta tgccttgtcg cgtggtgtgg cctatctcaa tgatattcgc
     4441 ggttttccag acgctgcgtt ctatccgcaa ttggcgaaat catctgccaa actcgtcgtt
     4501 atgcattcgg tgcaagacgg gcaggcagat cggcgcgagg cacccgctgg cgacatcatg
     4561 gatcacattg cggcgttctt tgacgcgcgc atcgcggcgc tgacgggtgc cggtatcaaa
     4621 cgcaaccgcc ttgtccttga tcccggcatg gggttttttc tgggggctgc tcccgaaacc
     4681 tcgctctcgg tgctggcgcg gttcgatgaa ttgcggctgc gcttcgattt gccggtgctt
     4741 ctgtctgttt cgcgcaaatc ctttctgcgc gcgctcacag gccgtggtcc gggggatgtc
     4801 ggggccgcga cactcgctgc agagcttgcc gccgccgcag gtggagctga cttcatccgc
     4861 acacacgagc cgcgcccctt gcgcgacggg ctggcggtat tggcggcgct gaaagaaacc
     4921 gcaagaattc gttaactgca cattcgggat atttctctat attcgcgctt catcagaaaa
     4981 ctgaaggaac ctccattgaa tcgaactaat attttttttg gtgaatcgca ttctgactgg
     5041 ttgcctgtca gaggcggaga atctggtgat tttgtttttc gacgtggtga cgggcatgcc
     5101 ttcgcgaaaa tcgcacctgc ttcccgccgc ggtgagctcg ctggagagcg tgaccgcctc
     5161 atttggctca aaggtcgagg tgtggcttgc cccgaggtca tcaactggca ggaggaacag
     5221 gagggtgcat gcttggtgat aacggcaatt ccgggagtac cggcggctga tctgtctgga
     5281 gcggatttgc tcaaagcgtg gccgtcaatg gggcagcaac ttggcgctgt tcacagccta
     5341 tcggttgatc aatgtccgtt tgagcgcagg ctgtcgcgaa tgttcggacg cgccgttgat
     5401 gtggtgtccc gcaatgccgt caatcccgac ttcttaccgg acgaggacaa gagtacgccg
     5461 cagctcgatc ttttggctcg tgtcgaacga gagctaccgg tgcggctcga ccaagagcgc
     5521 accgatatgg ttgtttgcca tggtgatccc tgcatgccga acttcatggt ggaccctaaa
     5581 actcttcaat gcacgggtct gatcgacctt gggcggctcg gaacagcaga tcgctatgcc
     5641 gatttggcac tcatgattgc taacgccgaa gagaactggg cagcgccaga tgaagcagag
     5701 cgcgccttcg ctgtcctatt caatgtattg gggatcgaag cccccgaccg cgaacgcctt
     5761 gccttctatc tgcgattgga ccctctgact tggggttgat gttcatgccg cctgtttttc
     5821 ctgctcattg gcacgtttcg caacctgttc tcattgcgga caccttttcc agcctcgttt
     5881 ggaaagtttc attgccagac gggactcctg caatcgtcaa gggattgaaa cctatagaag
     5941 acattgctga tgaactgcgc ggggccgact atctggtatg gcgcaatggg aggggagcag
     6001 tccggttgct cggtcgtgag aacaatctga tgttgctcga atattccggg gagcgaatgc
     6061 tctctcacat cgttgccgag cacggcgact accaggcgac cgaaattgca gcggaactaa
     6121 tggcgaagct gtatgccgca tctgaggaac ccctgccttc tgcccttctc ccgatccggg
     6181 atcgctttgc agctttgttt
//
