LOCUS       NZ_AP027951             1934 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain VE-F10 plasmid pVE-F10_5, complete sequence.
ACCESSION   NZ_AP027951
VERSION     NZ_AP027951.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00587229
            Assembly: GCF_030161935.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Suzuki,M., Vu,T.M.H. and Kasuga,I.
  TITLE     Whole genome sequencing of colistin-resistant Escherichia coli
            isolated from Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1934)
  AUTHORS   Suzuki,M., Vu,T.M.H. and Kasuga,I.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-APR-2023) Contact:Masato Suzuki National Institute of
            Infectious Diseases, Antimicrobial Resistance Research Center; 4-2-1
            Aobacho, Higashimurayama, Tokyo 189-0002, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Coverage                   :: 232x
            Sequencing Technology             :: Illumina MiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/23/2023 18:03:22
            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)                     :: 4,869
            CDSs (total)                      :: 4,747
            Genes (coding)                    :: 4,544
            CDSs (with protein)               :: 4,544
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 203
            CDSs (without protein)            :: 203
            Pseudo Genes (ambiguous residues) :: 0 of 203
            Pseudo Genes (frameshifted)       :: 63 of 203
            Pseudo Genes (incomplete)         :: 134 of 203
            Pseudo Genes (internal stop)      :: 42 of 203
            Pseudo Genes (multiple problems)  :: 37 of 203
            Pseudo Genes (short protein)      :: 4 of 203
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027951.1.
            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..1934
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="VE-F10"
                     /db_xref="taxon:562"
                     /plasmid="pVE-F10_5"
                     /geo_loc_name="Viet Nam:Hanoi"
                     /lat_lon="20.95712843 N 105.82005564 E"
                     /collection_date="2020-07-03"
     gene            complement(join(1046..1934,1..98))
                     /locus_tag="QQK65_RS24340"
                     /old_locus_tag="VEF10_46670"
     CDS             complement(join(1046..1934,1..98))
                     /locus_tag="QQK65_RS24340"
                     /old_locus_tag="VEF10_46670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_016245711.1"
                     /translation="MQNPKLQNLTDYSPSDAPWDAHKSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGETLNRMNMAFQRLKDRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMFTRDYVKHDRWVELWRECLRVNYDPNVDVRAVKPRKPKDGE
                     SLASATAELVRGAVAETLKYSTKPADMVADPEWFLELTKQTHKRRFVATGGALKDILKL
                     DQETDADMVIGDDIPEGDDDGSRIAFEWKTESKKYRRSPSKDKAESD"
                     /name="protein rep"
     gene            complement(85..387)
                     /locus_tag="QQK65_RS24345"
     CDS             complement(85..387)
                     /locus_tag="QQK65_RS24345"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023150476.1"
                     /translation="MAGSIRARSLYLYLRDNSGDKKWHQALRTKASGLICVVEGFGSIL
                     LGVVALKATPATTAIVRGCDHLQKFDSKRQPTGDTAMITRQMSHRPAWDGVHAKP"
                     /name="hypothetical protein"
     ARG             complement(4..98)
                     /name="PEDO-3"
                     /gene="PEDO-3"
                     /gene_name="subclass B1 PEDO beta-lactamase"
                     /tool="rgi"
                     /drug_class="carbapenem"
                     /identity="100.0"
                     /coverage="13.5"
     Typing          1129..1320
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.601"
                     /coverage="100.0"
                     /evalue="1.39e-59"
ORIGIN
        1 taaatcccac ctacgtcgtc agaaacgctt ttgtgagcgt cccagggcgc gtctgagggg
       61 gagtaatccg tgaggttctg gagtttaggg ttttgcatgc acaccgtccc atgctgggcg
      121 atggctcatt tgacgtgtta tcattgccgt atcacctgtt ggttgtcgct tcgaatcgaa
      181 tttctgcagg tggtcacacc cccgaacgat ggccgtcgtt gcgggggtcg cttttaaggc
      241 gaccactccc aacagaatac ttccaaaacc ttctacaacg caaataagcc ccgaagcctt
      301 ggtacgcaag gcttgatgcc attttttatc gccagagtta tcccttaagt ataaatacaa
      361 ggatcgcgcg cggatcgaac cagccattca acgcccaccc gccaccaaaa actgccacaa
      421 cgccaggagc gaaacagcaa cgctcaacgc actatcaaca tgattaagaa cctcaaaaaa
      481 cataacaacc tcactcgaat ggaattgggt aaatctattt agtctgtgat ttgcgaaccc
      541 atactttttc gcatcacgac agaaccaact ccattcgttc tggttgtatc cggtaccaga
      601 caattaaaaa ccgtcttcca ggtggttggc ctcacttcgt gaatccaacc acctcagcca
      661 atttttcaat cagcaatgtc gtcaatcact aaatcggaac ccactggcaa gccagcggga
      721 ccccacgatt tagagtttga cgatttcgga aacagcgagc gctggcagat tttaatctga
      781 ctgcgtgagg tgttggcagg gtgtcggggc gcagccctga cgaatcgttt ttggcaccga
      841 catcgtgatg gcggtgtacc aaaaacacat cttgtcccaa ctgagttcgg aaaccgaact
      901 cagtaattga gtgacgtcac tttgcggcgt tagccctatc ctgcatcgga gtagaaccaa
      961 taggacaaga tgtgtttttg gagtaccgcc gacaagcggc gtcctctcaa aaacgtcgtg
     1021 gtcagggctg cgccccgaca ccctgtcagt ctgattcagc tttatctttt gacggtgagc
     1081 gacggtactt tttggattcg gttttccact caaaagcaat gcgtgaacca tcatcatcgc
     1141 cttcgggaat atcatccccg attaccatat cggcatcagt ttcctgatcg agtttcagta
     1201 tgtctttgag tgcgccaccg gtagccacaa atcggcgctt atgtgtctgc ttagtcaatt
     1261 cgaggaacca ttcaggatca gcaaccatgt cagccggctt cgtggaatat ttcagggttt
     1321 cagccactgc gccccgtaca agttccgcag ttgcagaagc caatgattct ccgtccttag
     1381 gcttgcgggg ttttactgct cgaacatcaa cattcggatc gtaattcaca cgcaaacact
     1441 ctcgccaaag ctctacccag cggtcatgtt taacgtaatc tcgcgtgaac attgagggag
     1501 gaaccatcat cagagtgtga aagtgcgggt gcgcactacc gtcacttcca cgtgtaactt
     1561 ccgtggtgcg gatccagccc tgaacaggtc gaaactcttt gcgatcctta agtcgctgga
     1621 aggccatgtt cattcggtta agtgtctcac ccaattcccc gatcgcgcag tttcgcactg
     1681 tgagggtcag gaacatccag cgtgcatctg gataatccgc aacaatacgc ggcagggact
     1741 gataaaaacg ggcttgccac atcagggatc gcctccactg gcagacagga cagtgccgga
     1801 cacgacagaa atgcgcctca cgtagcctaa ggcgagtttc tccagtttct ttgagggtag
     1861 accaaccaaa cctcagtaaa ccgccacagg aagccatacg cgccccgtag cgctcatatt
     1921 cggctgcgag aagg
//
