LOCUS       NZ_CP116175             1985 bp    DNA     circular CON 25-FEB-2024
DEFINITION  Escherichia coli strain DETEC-P1056 plasmid pDETEC86, complete
            sequence.
ACCESSION   NZ_CP116175
VERSION     NZ_CP116175.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31988445
            Assembly: GCF_027944915.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1985)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Extended-spectrum beta-lactamase genes traverse the Escherichia coli
            populations of ICU patients, staff and environment
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1985)
  AUTHORS   Moran,R.A., Baomo,L., Doughty,E.L., Guo,Y., Ba,X., van Schaik,W.,
            Zhuo,C. and McNally,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2023) Institute of Microbiology and Infection,
            University of Birmingham, Institute of Microbiology and Infection,
            Birmingham B15 2TT, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/25/2024 01:49:26
            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)                     :: 4,863
            CDSs (total)                      :: 4,743
            Genes (coding)                    :: 4,559
            CDSs (with protein)               :: 4,559
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 64 of 184
            Pseudo Genes (incomplete)         :: 109 of 184
            Pseudo Genes (internal stop)      :: 47 of 184
            Pseudo Genes (multiple problems)  :: 37 of 184
            Pseudo Genes (short protein)      :: 3 of 184
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP116175.1.
            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..1985
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="DETEC-P1056"
                     /isolation_source="ICU patient rectal swab"
                     /db_xref="taxon:562"
                     /plasmid="pDETEC86"
                     /geo_loc_name="China: Guangzhou"
                     /collection_date="2019-10-22"
     gene            complement(1248..1805)
                     /locus_tag="PIC86_RS24270"
                     /old_locus_tag="PIC86_24265"
     CDS             complement(1248..1805)
                     /locus_tag="PIC86_RS24270"
                     /old_locus_tag="PIC86_24265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017384791.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WP_241102447.1"
                     /translation="MANVGYIRVSTTDQHTDRQLAGVQLDKVFTDKVSGKGTDRPGLQA
                     MLEYVREGDTVHVHEISRLARNTADLLAIVEGLTARKVAVQFHKEGISTGEGSAVGNLV
                     LTLLASVAQMERELMLERQREGYAAAKAAGRITGRGKGKAIDRSAVLADLAGGDSIRTV
                     ATRHGISTRTVQNIKAEANQAG"
                     /name="recombinase family protein"
ORIGIN
        1 ggccgggcct tcctcagact ctacgccgta ccgctcccgt agttcggcta tcaagttacg
       61 cagggtaggc tgtgctggct ggttacttag ggaggggtta ctcataggtt gctctcctgt
      121 gctggtggct ggctggttac ttagggttac tcatagctgg gctatctccg ggtgccttac
      181 tcgtgggtta ctcactgcct actctcgctc tgggttgtct ctctgggtag tctcctctct
      241 gggttaccct tgcccgtgtc tctctcctcc ctccctccct tccctccggg ttaccgccgt
      301 aacagatacg aaaggcgtta aagccgcatt cgaccgttct gttactgtag gggtgcatta
      361 tcacctgggt ggcttcatgc tgtacggctt gctgtgtata tagggctata catagggctg
      421 ctagtgcagg ttccctagtg ctgcctacgg cggtgggccg ggtagggata gtatggggac
      481 ttggagctat gggcacaggc tcactacctc cgcgcacaat ttcatagtaa tagggctgcg
      541 ggtataaggg ttgctaaggt cgcacatagg gtagctagca gggatgcctg aagctcctgt
      601 gcggctgtat aacgggacgt aggccggatg tgtgggatag ggctaccggg ttgctctttg
      661 gcgctctccg ggctgctggt ggcctctgag ctacacaggg gcagtgtgtc cccgtagtgc
      721 cgggttacgg taggtatagg gcttgtgtga ccgggtatgc taaacagata cagataggcc
      781 gctcggctgc tgtgtacctt attcgggcgc tccaccagcc gcaggcaata gctgcctaat
      841 gccccgatgt ggtactagcc acagtggagc gtagcgacgg cctcagtagt gccgtggtgg
      901 aggtgcagcg cgttccctag tcctgctgct atggtccctt gagccgggcg gtatcaggta
      961 ctgttatcgt acagtgagac ggtggcagag cctgcatatc gtgtgcaggt acgttaagca
     1021 ccacagttag cctgtttggt ccgggccaga ctgaccagct caattggata gcgaagtgtt
     1081 aatgtcgttg gatggttgtg tcgaggtagt gacaagctag ccccgcgttg ctactatctc
     1141 agttgtctag gctggtgaag tagctacgcg ctatcaggaa tcagattaca tggccccgct
     1201 ggttaacaca actgcggggc tttgttctta ttggaggtag caccctgtta acctgcctga
     1261 ttagcctcgg ccttgatgtt ctgtacggtg cgtgtggata tgccatgccg ggtagctact
     1321 gtccgtatgg agtcacctcc ggcaaggtct gcgagtacag cgctacggtc tatggcctta
     1381 cccttacccc gtccggttat acggcctgct gctttagctg ctgcataccc ttcccgctgc
     1441 cgttctagca taagctcacg ctccatctgt gccacgctag ccagcagggt tagcactagg
     1501 ttgcctacgg cgctgccctc tccggtgctg ataccttcct tgtggaactg taccgctacc
     1561 ttacgggctg tcagtccctc tacgatagcc agcaggtccg cagtgttccg ggctagcctg
     1621 cttatctcat gtacgtgtac ggtgtcgcct tctctcacat actccagcat ggcctgtagt
     1681 ccaggtcggt ctgtaccctt accgctcacc ttatccgtga ataccttgtc caactgtacc
     1741 ccggctaact gtcggtcggt gtgctggtct gtggttgata cccggatgta acctacgtta
     1801 gccatgctgt cctctctgta gcaatatgtc tatccggtgg tatattacta cagtgtggta
     1861 ctgtgtaaag gctaattact acagctacag ggctataacc gggtattctg tctgtggtag
     1921 ttaagcgtgg tatattacta cggcctgcac tgtgggttac tcagggtgcc taccagatct
     1981 ctcag
//
