LOCUS       NZ_AP025218             2137 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Escherichia coli strain 2017.09.02CC plasmid p20170902CC-4, complete
            sequence.
ACCESSION   NZ_AP025218
VERSION     NZ_AP025218.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00407182
            Assembly: GCF_020886495.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Yamamoto,Y., Higashi,A., Ikawa,K., Yamaguchi,T., Kawahara,R.,
            Nguyen,T.N., Khong,D.T. and Tran,H.T.
  TITLE     Horizontal transfer of mcr-1 marked with a single nucleotide
            mutation between clinical isolates from community residents
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2137)
  AUTHORS   Yamaguchi,T. and Kawahara,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-OCT-2021) Contact:Takahiro Yamaguchi Osaka Institute
            of Public Health, Division of Microbiology; Higasinariku nakamichi
            1-3-69, Osaka, Osaka 537-0025, Japan URL :https://www.iph.osaka.jp/
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Coverage                   :: 72x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:27:21
            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)                     :: 4,854
            CDSs (total)                      :: 4,729
            Genes (coding)                    :: 4,576
            CDSs (with protein)               :: 4,576
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 153
            CDSs (without protein)            :: 153
            Pseudo Genes (ambiguous residues) :: 0 of 153
            Pseudo Genes (frameshifted)       :: 58 of 153
            Pseudo Genes (incomplete)         :: 100 of 153
            Pseudo Genes (internal stop)      :: 35 of 153
            Pseudo Genes (multiple problems)  :: 35 of 153
            Pseudo Genes (short protein)      :: 3 of 153
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP025218.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            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..2137
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.09.02CC"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p20170902CC-4"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017-11"
     gene            join(1859..2137,1..717)
                     /locus_tag="LPH32_RS24165"
     CDS             join(1859..2137,1..717)
                     /locus_tag="LPH32_RS24165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_038989441.1"
                     /translation="MQNPKLKNLTDYSPDDKPWDVHKSQSDDVGGIYLRAAEFEAYAAR
                     MRDCGGLLRFGWSTLKDTGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPKIV
                     ADYPDARWMFLTLTVRNCAIEDLGDTLTAMNAAFQRMKVRKEFKSVQGWIRTTEVTRGR
                     DGSAHPHFHTLMMVPPGMLNGHDYVKHYRWVELWRDCLRVDYDPNVDVRAVKPRKPKDG
                     QTLACATAELVRGAVAETLKYSTKPADMVADPDWFLELTRQTHKRRFVATGGALKDVLK
                     LEQETDQDMVIGDDISDGEDDGSRLAFGWDSTPRKYVRLPERDKFKSDPD"
                     /name="protein rep"
     Typing          complement(438..628)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.375"
                     /coverage="98.0"
                     /evalue="1.4200000000000001e-44"
ORIGIN
        1 gcccgttttt atcagtctct gccgaaaatc gtcgctgatt accctgatgc ccgctggatg
       61 ttcctcacgc tcaccgttcg caactgtgcg atcgaggatc tcggggacac gcttactgcc
      121 atgaatgccg cattccagcg catgaaggtt cgcaaggaat ttaaatccgt acagggatgg
      181 attcgcacca cagaagttac ccgcggtcgt gatggctctg cacaccccca ctttcacacc
      241 ctgatgatgg ttcctcctgg gatgctgaac ggtcatgact acgttaagca ctaccgctgg
      301 gttgaactct ggcgtgactg cctgcgcgtt gattacgatc ctaatgttga tgttcgggca
      361 gtgaaacccc gcaagcctaa agatggccag actctggcat gtgccactgc tgaactggtg
      421 cgcggtgccg ttgctgaaac cctgaaatat tcgacaaagc cggctgatat ggttgccgac
      481 ccggactggt tcttagagct gacccggcag acgcataaac gccgttttgt tgcgaccggt
      541 ggcgctctga aagacgttct gaaactggag caggaaacgg atcaggacat ggtgatcggg
      601 gatgatattt ccgatggtga agacgatggt tcacgcctcg cctttggctg ggattcgacg
      661 ccaagaaaat acgtccgttt gcctgaacgc gataagttta aatcagatcc tgattagggt
      721 gtcggggcct gccctgacca ggttgttttt ggatgccgct gcgtgtggcg gtactccaaa
      781 aacacatctt gtccggtaca cagatttcct ttggcattcc ttcgggtttc cctgagattt
      841 ccactctgca tacatacacg catacacgaa taatcaacgg cagaattcgg gcaggatatg
      901 taaagtggga ccactttacg cctgccttat tcgcactctg ctcaatggaa tattaaatct
      961 gacagcgttc gccgccgtcg aatcgtcaac ttctaaatcg ggggatccct ttagggttcc
     1021 gatttagtgg ttgtacgact gcacccctca tacccttgtg atgggtgatg gttcacatgg
     1081 tgagccatcg ccctgtaaag ccgcttttta cccccttcaa ggcgttgcct gtggggtagg
     1141 tgcgtaagcc ctgccctaca ggtgatgccg tgggggtatt ttcgttttgc tcggtatgcc
     1201 ttattcgttt aaatccgcca tcaggagtat gcggggtaaa gtcgtgcggc cgcgatgagg
     1261 aacggggatt gcccccgcag ctctgcgagg aggcacacgc cgttcggaat cggggtccac
     1321 tctgtttaat agtggactct tgttgcgatt tgcaacggaa acagccgcgt gcagtgaatg
     1381 taatactgca cgtttgtctc aatctgacat ttctcagggg gggcgattta acgtggtttg
     1441 cttaattttt gagcttacga atgcttgagt gtttgagtgc ctgaatgctg cttttggggg
     1501 ttggtttttc ggccctgaaa ggggcgaaat ccttgtattt atacttaagg gataactcta
     1561 ggattcaaat tcgcttccag cccttgtgcc gcaaggcctg agagccaatt tgctcgaaaa
     1621 tggttttgtg agtatgattt ctgacaggtg atcgtgtccg cgaactaatt tttgattact
     1681 tggggtggtt cccaagacct tacttactga cacgatgata tgagaaaccc ctgcaagtgc
     1741 taccaacact tcaggggcgc gatcacctgg ctaaatacgg tttgaaatcg actcgcaaca
     1801 ggtgatacgg aaatgataac acacccttcc agcgcctgcc catattggag caggtgctat
     1861 gcagaatcct aagctaaaga accttactga ctacagtccc gacgataagc cgtgggacgt
     1921 tcacaagtcg caatctgatg atgttggcgg tatctatctg cgtgcagctg aatttgaggc
     1981 gtatgcggct cgtatgcgcg attgtggcgg cttgctgcgt tttggctggt ctacccttaa
     2041 agacaccgga gaaacgcgtt tacggcttcg tgaggcgcat ttctgccgcg ttcgtcactg
     2101 ccctgtctgc cagtggaggc gttccctgat gtggcaa
//
