LOCUS       NZ_CP015143             1549 bp    DNA     circular CON 13-JUN-2024
DEFINITION  Escherichia coli strain Ecol_732 plasmid pEC732_5, complete
            sequence.
ACCESSION   NZ_CP015143
VERSION     NZ_CP015143.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04621897
            Assembly: GCF_001617565.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  AUTHORS   Stoesser,N., Sheppard,A., Peirano,G., Sebra,R., Lynch,T., Anson,L.,
            Kasarskis,A., Motyl,M., Kazmierczak,K., Crook,D. and Pitout,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-APR-2016) Department of MIcrobiology (Research), John
            Radcliffe Hospital, University of Oxford, Headley Way, Oxford OX3
            9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2.2.0
            Genome Coverage                   :: 1x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_001617565.1-RS_2024_06_13
            Annotation Date                   :: 06/13/2024 01:47:19
            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)                     :: 5,381
            CDSs (total)                      :: 5,268
            Genes (coding)                    :: 5,043
            CDSs (with protein)               :: 5,043
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 225
            CDSs (without protein)            :: 225
            Pseudo Genes (ambiguous residues) :: 0 of 225
            Pseudo Genes (frameshifted)       :: 84 of 225
            Pseudo Genes (incomplete)         :: 167 of 225
            Pseudo Genes (internal stop)      :: 38 of 225
            Pseudo Genes (multiple problems)  :: 54 of 225
            Pseudo Genes (short protein)      :: 1 of 225
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP015143.1.
            Bacteria available from Johann Pitout, University of Calgary
            Laboratory Services, Calgary, Alberta, Canada, or Nicole Stoesser,
            Department of Microbiology, John Radcliffe Hospital, Headley Way,
            Oxford, UK.
            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..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Ecol_732"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEC732_5"
                     /geo_loc_name="Thailand: Bangkok"
                     /lat_lon="13.76 N 100.50 E"
                     /collection_date="2012"
                     /collected_by="Merck Study for Monitoring of Antimicrobial
                     Resistance Trends (SMART)"
     gene            complement(join(1230..1549,1..157))
                     /locus_tag="A4X18_RS27365"
                     /old_locus_tag="A4X18_27350"
                     /old_locus_tag="A5H92_RS27350"
     CDS             complement(join(1230..1549,1..157))
                     /locus_tag="A4X18_RS27365"
                     /old_locus_tag="A4X18_27350"
                     /old_locus_tag="A5H92_RS27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            660..785
                     /locus_tag="A4X18_RS29590"
     CDS             660..785
                     /locus_tag="A4X18_RS29590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     Typing          237..345
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.091"
                     /coverage="100.0"
                     /evalue="9.09e-49"
     Typing          complement(541..639)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          739..999
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 tgccttggct atccttcagc agctctcgaa cacgttccca accttttggg gatacctgtg
       61 taaaccttga atttttcttt gcttcttcga gatcctcggt gtttttcttt gcctcatctg
      121 aaagttgttt cagtcgtttt tctgaatcaa taaacatgat tttttccctc tgaaaatccc
      181 atgcactaac gttggtttaa atctaagcca tcatgacaca tctgtgcaac accttgttgc
      241 gtgttgtcgc atccaggatg cgacaacgtt gtgtcatcct ggatgcgaca ggtaaataaa
      301 aaacacacta aaaaaacaac cacttacaaa tcggcgtaaa agatctattc taggcaaggg
      361 tgttgcgtgc aacgcaacgc cctttggggg tgtcggggcg aagccctgac ccagtcacgt
      421 agcgatagcg gagtgtatac tggcttactc ctatgcaagc ctcgccagcc gtgatttttg
      481 ccagatttcg tggttttcac gttcaacagc tccatcgtgt ttttgccgtc cgttcaccgt
      541 taaaacgcct cagaaatcgg gacaggatgt gtaatcgtat aaccgcgcat gcacgccgat
      601 acgattacca cttggtcagg gcttcacccc gacaccccgc atcagtgcgt aagtgctcaa
      661 tgtggcttcc ggttctcttc cgcttcctcg tcgattcgct cgctacgctc ggtcatcgac
      721 ttgcggcgag cgggatcacc tctcgcatgt tgtcggtgat cccggtgttg ttcttttggg
      781 gatgagtcgc cagatagccc ctcaaacgcg ctcaaaagct ctcagacgca cgaaacgggt
      841 tttagatgcc cgccagggca tggaaggcgc gaaaaacgct tacagaggct ctcaggaggt
      901 caagcgcgcc gataccccta accaggggct ttcaggtcgc caggaaccgc gccagccccc
      961 tgcaaagccc atttgcacgg aacaggcagc catgcggttg gtaggtggtc gtagaccgtc
     1021 ggtgttgcag cgatgggggt ctggggttct ccccagacgg tttccggtag cgctcaaggc
     1081 gctgccggaa ccgtggcggc tcggtttttt ctggagaacg gggagcaaaa acacgcaaag
     1141 gattttgagg cggcaaaaga gcaatgcagg atagacaatc atggtcagaa cgttaacacg
     1201 tagcccctga ttgtccgcct gccgctagct caatttgaaa acatggccat gattcggcgc
     1261 tgaatatcac cgtctttgtt gaccagtgtt ttagtgacaa acgctgcatg gtttttcgta
     1321 gtgttgtatc ccttccagac ttcatgtgga tcgagggcat acgcacaaac cttaccagca
     1381 acggggattc taactaatgc attttttgat tctaagtaat tgagccaccg aataattgtg
     1441 cttctgctaa ctccaagttt ttcagctagg aattgctgat ccgcaacgac agcgccacac
     1501 gtaggatcga tatgctccgc taaaaatgag tacagcttca gtgctgata
//
