LOCUS       NZ_CP128793             3684 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain WL7562 plasmid pWL7562-3, complete sequence.
ACCESSION   NZ_CP128793
VERSION     NZ_CP128793.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35883540
            Assembly: GCF_030388645.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3684)
  AUTHORS   Jiang,T.
  TITLE     Complete genome sequence of a carbapenem resistant E. coli isolate
            WL7562
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3684)
  AUTHORS   Jiang,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-JUN-2023) Department of Clinical Laboratory, The
            Affiliated Wenling Hospital, Chengxi, Wenling 317500, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:59:52
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,873
            CDSs (total)                      :: 4,753
            Genes (coding)                    :: 4,528
            CDSs (with protein)               :: 4,528
            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)              :: 225
            CDSs (without protein)            :: 225
            Pseudo Genes (ambiguous residues) :: 0 of 225
            Pseudo Genes (frameshifted)       :: 81 of 225
            Pseudo Genes (incomplete)         :: 145 of 225
            Pseudo Genes (internal stop)      :: 47 of 225
            Pseudo Genes (multiple problems)  :: 46 of 225
            Pseudo Genes (short protein)      :: 4 of 225
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128793.1.
            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..3684
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WL7562"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pWL7562-3"
                     /geo_loc_name="China: Wenling"
                     /collection_date="2021"
                     /collected_by="JT"
     gene            100..291
                     /locus_tag="QUY19_RS24340"
                     /old_locus_tag="QUY19_24340"
     CDS             100..291
                     /locus_tag="QUY19_RS24340"
                     /old_locus_tag="QUY19_24340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_039023180.1"
                     /translation="MSKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            291..713
                     /locus_tag="QUY19_RS24345"
                     /old_locus_tag="QUY19_24345"
     CDS             291..713
                     /locus_tag="QUY19_RS24345"
                     /old_locus_tag="QUY19_24345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_039023181.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVLKHGKTIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAGSTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPDSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1498..1800)
                     /locus_tag="QUY19_RS24350"
                     /old_locus_tag="QUY19_24350"
     CDS             complement(1498..1800)
                     /locus_tag="QUY19_RS24350"
                     /old_locus_tag="QUY19_24350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006326557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3892 domain-containing protein"
                     /protein_id="WP_039023182.1"
                     /translation="MVDFYISAIKMDSAGQHIEFVKVHKINRDGSWNTAGSISSRKFIS
                     ELISMGKASFMTVVKNSSTGKWNLGAKVEAMDDGYITTDPNKTKLDNLGNLPKFV"
                     /name="DUF3892 domain-containing protein"
     gene            complement(1864..2157)
                     /locus_tag="QUY19_RS24355"
                     /old_locus_tag="QUY19_24355"
     CDS             complement(1864..2157)
                     /locus_tag="QUY19_RS24355"
                     /old_locus_tag="QUY19_24355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_023317864.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLDVSQSTLSRLLN
                     GKTDLSYEMALRLSKVVGRSAESWVNMQTQFSLSKSRKSLAAELEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            2494..2775
                     /locus_tag="QUY19_RS24360"
                     /old_locus_tag="QUY19_24360"
     CDS             2494..2775
                     /locus_tag="QUY19_RS24360"
                     /old_locus_tag="QUY19_24360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_032440460.1"
                     /translation="MIKNIKHKGLRSFAEEGSTAGIQPSMAKRLRMILTTLSTATCIQD
                     VVDVRALGCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(3233..3379)
                     /locus_tag="QUY19_RS24365"
                     /old_locus_tag="QUY19_24365"
     CDS             complement(3233..3379)
                     /locus_tag="QUY19_RS24365"
                     /old_locus_tag="QUY19_24365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_073545459.1"
                     /translation="MHEPPVQSDCCTLSGNYHLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     Typing          complement(3271..3643)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.467"
                     /coverage="91.0"
                     /evalue="1.28e-167"
ORIGIN
        1 gctcgccgca gccgaacggc aggagcgtag cgactgagtg agcgaggaag cggaaaagag
       61 aacataccta cactgagcac tgacgctctg aggcctctta tgtcgaaaca acagaaaaca
      121 gcgctgaaca tggctaaatt catccagaat cagtctctgc tcctgctgga gaagcttaac
      181 gagcttgatc ttgatgcaga ggccgacctt tgtgagaaac tccacgatga tgcggagcat
      241 cttttccgta cactgtcctc gagactggat gaattacagg atggtaactg atggccagag
      301 tgtctattag tgaagcggca cggcttgtta aggttagtcg ccccacaatt tacaagatga
      361 ttaacagtgg gaagttaagt tacacctctg ttttaaagca cgggaagacc attaaagtta
      421 ttgatacttc agagcttatt agagtttttg gttctcttga tggtgtcatc gatactgtaa
      481 aatatgatgt aaaaagtgac gcaggatcta caggtgttaa cagcgttggt ttacatgatt
      541 tacaacatag aattgcttta ctagaagctg aaaacgatgg tcttaaaggg gctgttaagg
      601 ctcgagatga gcatattgat tcccttcgtc aggctatgca gcttctggag cacaagcacg
      661 aaccttcttc accacccgat tccccgtggt ggaaattctg gaaaaaatcc tgactccgtc
      721 atgcttccgt tttcctctcc ggccatcccg gggagttcct gaaccttccc aaaaatcgcc
      781 agatctctga acgctcctca cgactaaaaa tacccacaca ctacgcaaaa ttaaaatttt
      841 gcagatttgt atttaatatc agtagcttac tttcctgaag tttcggtttt taaattttat
      901 ttacatagat ccgactctat gacgactcgt catagagtcc ccggcgagtc gtcatagagt
      961 cggtaacgac tcagagctat aaaaacaatg agttaataac gacccgactc tagacccgac
     1021 tccccgtttg gttgtttttt agactcggcg actctgggta cgactctagt gaagagtcgc
     1081 cggtgaatcg tgtggtgagt cgtccggcga cttgccatga cgtgattgcc ggccgtcgac
     1141 gaacacgatt cctgaacgtg ctgaaaaccg gttttccggc tgcgccggca acgcttcacg
     1201 gccacgcaat aaattgcgtc cccgttcacc gttttcggat gggaagaacg ccggaaacag
     1261 gacttaccct ggctgaatgg cgtgaatttt cgcgctatgc acttgcgtgc atactcatgc
     1321 atgccgtaaa aacagagcct gcgcgtttct gacgggtttt cgggtggttt gttgcctgtt
     1381 ttaccggttt cctgtcagaa acgccctgag gccgttctgg cggtgcgtac aattatgact
     1441 ttatgttaaa tcattaggga ggggattctg ctggaactta gtggatgtta ttgcatatca
     1501 gacaaatttc ggcagatttc ccaagttatc gagtttagtt ttgtttggat ctgtggttat
     1561 gtagccatcg tccatcgctt ccactttggc tcctaggttc cacttaccag tagagctgtt
     1621 ctttacaact gtcataaagc tggcttttcc catgctgatc agctcgctga tgaatttgcg
     1681 agagctgatt gagccggcag tgttccatga gccatctcgg tttattttat gaacttttac
     1741 gaattcgatg tgctgaccag cactgtccat tttgattgct gagatataga aatctaccat
     1801 ggttgcctcc tgatggctgc tgggtgtttt acgtaacaaa agcccgcgtt ctgcgggctt
     1861 ttttcatgga aacattggat gcaagtgttc cagctctgcc gctaaagatt tgcgactttt
     1921 tgacaggctg aattgggtct gcatgtttac ccacgactct gcagagcggc ctacgacctt
     1981 cgacaatcta agtgccattt catagcttaa gtctgttttc ccatttaaca gtctacttaa
     2041 ggtagactgg gatacatcaa gtttatcggc taactctgcg gcaggtattt cgaacggttc
     2101 catgaacatt tctctgataa actcaccagg atgaacagga tcgtaaagat ttatcatgcc
     2161 ttcctctgtt tgttttgtat ttgattatac aaaaaaatta ctgcctttca gtatgcgcat
     2221 tgcacaatgt gcaagttcat gatattgaca aaaaaagcag tcagctttag gatactcgtt
     2281 ggagtcaaag ctactgcgta tgtatgggct tttatggcct tttcaaggcg cagtatttta
     2341 cccttaggat tcgttgaagt caaatgaggt gattgacctc aagaacaaac ttacgtcaat
     2401 tgttttaata aagcaagggg gcaaaatgga actaattaaa atgattttaa aatatagata
     2461 caggtataga cgaaaaaaat atggggattg tagatgataa aaaacataaa acataaagga
     2521 cttaggagct ttgctgaaga aggtagcacc gccggtattc agcccagtat ggcgaaaaga
     2581 cttcgcatga ttttgactac gctaagcaca gcaacttgca ttcaagacgt tgttgacgtt
     2641 agggcgttag ggtgccaccc cctaaagggg gagcgtaaag gcgagtattc cgttgaagtt
     2701 aatgggaact ggcgggtagt tttcaaggtt gaggaaccaa acgtcttaga cgttgatctt
     2761 gaagattatc attagttatc aataagtaag ttgctaatcc atccaagtga aagtacggat
     2821 ggattaggga ctttattaaa aaagtaacct ctggagaaag tatgagatcc tttatggttt
     2881 tattgttccc gttgattagc gtaactattg ctggagtcct agcttttcgt ggtattgatg
     2941 gctggggatg gttcttgtta gctgctgtac tttgtgcagg ggctgatact gtccagaagc
     3001 atgtgtctac caataaaaag gagcctgctg gtgagtgagc tgtcttggtt cttccttgac
     3061 tgctttgaat gataaagcgt atcttactcg ccgagacgaa aaaaccgcct ggggaggcgg
     3121 ttttttcgag ggttcagtaa gttggggaac ttctgaaccg tggtaacagg gtgtacaaga
     3181 ccgctgaaac caaattctgt cctttcagtt tagccgtagt tgggctgaga cttcaagaac
     3241 tctgtatcag taatctcttg tacaccttct taccagtggc tgctgccagt ggcgcttgtg
     3301 cgtgtcttac cgggttggac tcaagatgat agttaccgga taaggtgcag cagtcggact
     3361 gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgcctacccg gaactgagtg
     3421 tctggcgtgg aatgagataa acgcggccat aacagcggaa tgacaccggt aaaccgaaag
     3481 gcaggaacag gagagcgcac gagggagcca tcagggggaa acgcctggta tctttatagt
     3541 cctgtcgggg ttcgccacca ctgatttgag cgtcagattt cgtgatgctt gtcagggggg
     3601 cggagcctat ggaaaaacgg ccggtgtgcg gccttctccc tctccgtgct gtctgtccta
     3661 tgtcgttatg tgtgtattgc gacc
//
