LOCUS       NZ_CP060991             6200 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Escherichia coli strain EC31 plasmid pEC31-5, complete sequence.
ACCESSION   NZ_CP060991
VERSION     NZ_CP060991.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15904669
            Assembly: GCF_022558625.1
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  JOURNAL   Unpublished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_022558625.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:05:25
            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)                     :: 5,238
            CDSs (total)                      :: 5,118
            Genes (coding)                    :: 4,841
            CDSs (with protein)               :: 4,841
            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)              :: 277
            CDSs (without protein)            :: 277
            Pseudo Genes (ambiguous residues) :: 0 of 277
            Pseudo Genes (frameshifted)       :: 90 of 277
            Pseudo Genes (incomplete)         :: 190 of 277
            Pseudo Genes (internal stop)      :: 59 of 277
            Pseudo Genes (multiple problems)  :: 56 of 277
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060991.1.
            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="EC31"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC31-5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2017-12-06"
                     /collected_by="Long Sun"
     gene            complement(join(5931..6200,1..171))
                     /locus_tag="H9212_RS25940"
                     /old_locus_tag="H9212_25675"
     CDS             complement(join(5931..6200,1..171))
                     /locus_tag="H9212_RS25940"
                     /old_locus_tag="H9212_25675"
                     /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            389..778
                     /locus_tag="H9212_RS25945"
                     /old_locus_tag="H9212_25680"
     CDS             389..778
                     /locus_tag="H9212_RS25945"
                     /old_locus_tag="H9212_25680"
                     /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            822..>1226
                     /locus_tag="H9212_RS25950"
                     /old_locus_tag="H9212_25685"
                     /pseudo=""
     CDS             822..>1226
                     /locus_tag="H9212_RS25950"
                     /old_locus_tag="H9212_25685"
                     /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(1333..2169)
                     /locus_tag="H9212_RS25955"
                     /old_locus_tag="H9212_25695"
     CDS             complement(1333..2169)
                     /locus_tag="H9212_RS25955"
                     /old_locus_tag="H9212_25695"
                     /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(2169..2972)
                     /gene="aph(3'')-Ib"
                     /locus_tag="H9212_RS25960"
                     /old_locus_tag="H9212_25700"
     ARG             complement(2173..2972)
                     /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            complement(3033..3848)
                     /gene="sul2"
                     /locus_tag="H9212_RS25965"
                     /old_locus_tag="H9212_25705"
     ARG             complement(3037..3848)
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(4308..4466)
                     /locus_tag="H9212_RS26295"
     CDS             complement(4308..4466)
                     /locus_tag="H9212_RS26295"
                     /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            5037..5186
                     /locus_tag="H9212_RS25970"
                     /old_locus_tag="H9212_25710"
     CDS             5037..5186
                     /locus_tag="H9212_RS25970"
                     /old_locus_tag="H9212_25710"
                     /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             complement(1337..2169)
                     /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          4829..5002
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          complement(4300..4905)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctcagaagtg cgcagctcgc cataggcccg aatcagttca ctggtctcga actcccggcg
       61 atcatttttt cctgtgcgat agctgacaag gcctttagcc atgtcacgat ataattgcga
      121 gcgcgacttt cctgttaatt tcagtgtctc ttgaactgtg tgccatgcca taaaagtgac
      181 agtgtctcct gtgtgtaccg tattgtaaca gcagaacata ttactgtttt aacacaaaag
      241 gtctgaggct gcccgtgagg cgtgaaaaat acacaaaaaa cctgttgacg gtgtggtttt
      301 gacgggcgta gtatttcgaa tactgtatat aaacacattg ttataaatac agtttttgct
      361 gtttttaaaa gtcaaagagg ataattttat gagtacagag ttaaatagcg gtactgtcgg
      421 tggttttggt cacatgggac caaatgaccc ctacaatgat ggtcatagcg gctctggaag
      481 ttcgggaggt agttttaacg gtggtggtaa tggtggccat gataatagta gtggttcatc
      541 ttatactgca tcctttggtc tcatcactgg ccgacacccg ataactgtcc caggtacgaa
      601 gaatattaat tctgtcgatc tttctgctgt cattaataac attatacatc atgaaggtgc
      661 acgcaataac atgtacctag atactgcgaa caatgtaaga gtgggagtga cgggcactgg
      721 ctggcaatgt ctagcaacgg caggcatttc ggctgagggt aaaagaactt tccgctaagc
      781 gatagactgt atgtaaacac agtattgcaa ggacgcggaa catgcctcat gtggcggcca
      841 ggacggccag ccgggatcgg gatactggtc gttaccagag ccaccgaccc gagcaaaccc
      901 ttctctatca gatcgttgac gagtattacc cggcattcgc tgcgcttatg gcagagcagg
      961 gaaaggaatt gccgggctat gtgcaacggg aatttgaaga atttctccaa tgcgggcggc
     1021 tggagcatgg ctttctacgg gttcgctgcg agtcttgcca cgccgagcac ctggtcgctt
     1081 tcagctgtaa gcgtcgcggt ttctgcccga gctgtggggc gcggcggatg gccgaaagtg
     1141 ccgccttgct ggttgatgaa gtactgcctg aacaacccat gcgtcagtgg gtgttgagct
     1201 tcccgtttca gctgcgtttc ctgtttgggg tcgtttgcgg gaaggggcgg aatcctacgc
     1261 taaggctttg gccagcgata ttctccggtg agattgatgt gttcccaggg gataggagaa
     1321 gtcgcttgat atctagtatg acgtctgtcg cacctgcttg atcgcggccg cgatagctag
     1381 atcgcgttgc tcctcttctc catccgcgtt ccaagctgcg gaaaggcacc cataagcgta
     1441 cgcctggtcg agcaggcgac gcggatcgac gtccagcgca cgagagaatg cgtccgccat
     1501 ctgtgcaatg cgtctaggat cgagacaaag gtcgtctctg tcagccggat cgtagaacat
     1561 attggcggcg ccaaagccca cttcaccgac cagaccgacg ggatctatca ccagccagcc
     1621 gcgactggag aacatgatgt tttcatgatg cagatcgcca tgtagcccac gcagttccga
     1681 ggcattgctc atcatttgat cggctataat cgccgcgtgg acgtagtcag tttgacaacc
     1741 tgcgttttga tcatcgcgcg cccgctgaaa caaagctgca aagcgatccc ggatcgggag
     1801 aagggcagaa ggcaggggtt cctcagatgc ggcatacagc ttcgccatta gttccgctgc
     1861 aatttcggtc gcctggtagt cgccgtgctc ggcaacgatg tgagagagca ttcgctcccc
     1921 ggcatattcg agcaacatca gattgttctc acgaccgagc aaccggactg ctcccctccc
     1981 attgcgccat accagatagt cggccccgcg cagttcatca gcaatgtctt ctataggttt
     2041 caatcccttg acgattgcag gagtcccgtc tggcaatgaa actttccaaa cgaggctgga
     2101 aaaggtgtcc gcaatgagaa caggttgcga aacgtgccaa tgagcaggaa aaacaggcgg
     2161 catgaacatc aaccccaagt cagagggtcc aatcgcagat agaaggcaag gcgttcgcgg
     2221 tcgggggctt cgatccccaa tacattgaat aggacagcga aggcgcgctc tgcttcatct
     2281 ggcgctgccc agttctcttc ggcgttagca atcatgagtg ccaaatcggc atagcgatct
     2341 gctgttccga gccgcccaag gtcgatcaga cccgtgcatt gaagagtttt agggtccacc
     2401 atgaagttcg gcatgcaggg atcaccatgg caaacaacca tatcggtgcg ctcttggtcg
     2461 agccgcaccg gtagctctcg ttcgacacga gccaaaagat cgagctgcgg cgtactcttg
     2521 tcctcgtccg gtaagaagtc gggattgacg gcattgcggg acaccacatc aacggcgcgt
     2581 ccgaacattc gcgacagcct gcgctcaaac ggacattgat caaccgatag gctgtgaaca
     2641 gcgccaagtt gctgccccat tgacggccac gctttgagca aatccgctcc agacagatca
     2701 gccgccggta ctcccggaat tgccgttatc accaagcatg caccctcctg ttcctcctgc
     2761 cagttgatga cctcggggca agccacacct cgacctttga gccaaatgag gcggtcacgc
     2821 tctccagcga gctcaccgcg gcgggaagca ggtgcgattt tcgcgaaggc atgcccgtca
     2881 ccacgtcgaa aaacaaaatc accagattct ccgcctctga caggcaacca gtcagaatgc
     2941 gattcaccaa aaaaaatatt agttcgattc aatggaggtt ccttcagttt tctgatgaag
     3001 cgcgaatata gagaaatatc ccgaatgtgc agttaacgaa ttcttgcggt ttctttcagc
     3061 gccgccaata ccgccagccc gtcgcgcaag gggcgcggct cgtgtgtgcg gatgaagtca
     3121 gctccacctg cggcggcggc aagctctgca gcgagtgtcg cggccccgac atcccccgga
     3181 ccacggcctg tgagcgcgcg cagaaaggat ttgcgcgaaa cagacagaag caccggcaaa
     3241 tcgaagcgca gccgcaattc atcgaaccgc gccagcaccg agagcgaggt ttcgggagca
     3301 gcccccagaa aaaaccccat gccgggatca aggacaaggc ggttgcgttt gataccggca
     3361 cccgtcagcg ccgcgatgcg cgcgtcaaag aacgccgcaa tgtgatccat gatgtcgcca
     3421 gcgggtgcct cgcgccgatc tgcctgcccg tcttgcaccg aatgcataac gacgagtttg
     3481 gcagatgatt tcgccaattg cggatagaac gcagcgtctg gaaaaccgcg aatatcattg
     3541 agataggcca caccacgcga caaggcatag gcttgcgtcg cgggttgata actgtcgagc
     3601 gagacgggaa tgccatctgc cttgagcgcg tccagcaccg gcgcgatacg cgcgatttct
     3661 gtgtcggacg aaacaggcgc ggcgtcggga ttgctggatg ccggaccgag gtcgatcaca
     3721 tctgccccct cggccatcag cttacgcgcc tgcgcaatgg ctgcgtctgg cgccagatac
     3781 cggcctccat cggagaaact gtccgaggtt atgttgacga tgccgaaaat gatgagcgat
     3841 ttattcatgg gggcttctat aataataata atcgagcatg agtatcatac ggatgctcgg
     3901 gtcgaaaggg aatccccagg cgagtaacct gtttgcggtg atccgtttca tgatgatgta
     3961 tctgtagcat tttggaaata aatatatcat ctctcaataa gtagatatat ttatcttttt
     4021 tgcttctttg gtgctgcaag tcaccaatac gagggaaacc tgttacggag cggtttaacc
     4081 gtaatcaaca gtgactggtg tcatgttcgg aagattaatt gatagtaatc tacaaaggat
     4141 cttcttgaga tccttttcaa tgaatcgtaa tctcttgctc tgtaaacgaa aaaaccgcct
     4201 ggggaggcgg tttgttcgaa ggttaagtca gttggggaac tgcttaaccc ggtaacaggg
     4261 ttcacgagac cgccattacc aaaactgttc tttcagtgta gccgcagtca ggcctctact
     4321 tcaagacctc ttaatctatc ttctcgtgca ctcctgttac taatggctgc tgccagtggc
     4381 gttttgtcgt gtctttccgg gttggactca agttgatagt taccggacaa ggcgcagcgg
     4441 tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc cttcacggaa
     4501 ctgagtgtca ggcgtggaat gagaaaccgc ggccataaca gcggaatgac accggtaaac
     4561 cgaaaggcag gaacaggaga gcgcacgagg gagctaccag ggggaaacgc ctgggatctt
     4621 tatagtcctg tcgggtttcg ccaccactga tttgagcgtc agattttgcg atgcttgtca
     4681 ggggggcgga gcctatggaa aaacggcttc gccgtggcct tatctcttct ttgctaagtg
     4741 tcttcctggt atcttccagg aaatttccgt ccccgtccgt aagccggtac cgctcgccgc
     4801 agccgaacga ccgagcgtag cgagtcagtg agcgaggaag cggaatatct cctgtatcgc
     4861 atattctgct gacgcgccgg tgctgccttt tttctcctgc cacatgaagc acttcactga
     4921 ttttcgcaat cgtggcaaca tagtaagcca gtatacactc cgctagcgct acatgactgg
     4981 ttcagggctg cgccccgaaa cccgctaaca acctctcagc tactggatat caccccatgc
     5041 catctgaata tgatgaacaa ctggattcga ctgatacgca gcttcccggc gaatatgacc
     5101 tttttgattt aatggcgcag gttactgaag agaacctgca tgcccctgtg gattttgggt
     5161 cgcctgtcgg ccgggaagcg ttatagcttt ttcgcttgcc cgcgtacgtg gtaatactcc
     5221 ggtattacct tttatttctt tattttcatg taattacagt ggatttttaa tacccgggta
     5281 ttactcgtga aaacgaaata ttcctttttt ttcttttaat tcatgcagtt gcgatgaaaa
     5341 tcgcggctgc gttaggtgta tgaccatttt gaggttgaaa aataatcaac catggcgggt
     5401 gatttacgca ggttaagggg agatcgtgac aaaaaaagcg ttcctcactg tatcgttcat
     5461 gcctgcatga acgggttatt cttcctgact acagaattac atcgctcctt cagttcatac
     5521 atcactttta catcacttat acatcacttt tacatcattc cttcagctca tacgtcactt
     5581 tcatcctctg tgccatttgt acatcacccc cttcctgaac gtgctgacag cgggttttcc
     5641 ggctgcgccg gcaacgcttc acggccacgc aataaattgc gtccccgttc accgttttcg
     5701 gatgggaaga acgccggaaa caggacttac cccggctgaa tggtgtgaat ttccgcgcta
     5761 tgcacttgtg cgcatactca tgcatgccgt aaaaacagag cctgcgcgtt tctggcgggt
     5821 tttcgggtgg tttgttgcct gttttaccgg tttcccgtca gaaacgccct gagggcctct
     5881 caggcggtgc tgataacaga tgttatggta aatcagagtc acctgcactg ttactctgaa
     5941 ccggagcgaa acagccgcga ccagaatccc cgcttttttt cctgtgccag cgcgtcagcc
     6001 agacggctaa tttcggcctg tagttgttcc ctctcctcat ttcgcaggcg gttttctgct
     6061 tcccgcgcca tcttgtcttc aagcattagg gtaacagtct gctgcagagc gtccagtttc
     6121 tgctgaatga cgtctagctg agcattttcc gcctggctaa cgacagattt ggagtgtccc
     6181 tccttgtgcc tttttggtgt
//
