LOCUS       NZ_AP027968             3627 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain VE-T9 plasmid pVE-T9_5, complete sequence.
ACCESSION   NZ_AP027968
VERSION     NZ_AP027968.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00587239
            Assembly: GCF_030162155.2
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  JOURNAL   Unpublished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 3627)
  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                   :: 581x
            Sequencing Technology             :: Illumina MiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/23/2023 18:15:34
            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)                     :: 4,719
            CDSs (total)                      :: 4,604
            Genes (coding)                    :: 4,363
            CDSs (with protein)               :: 4,363
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 87 of 241
            Pseudo Genes (incomplete)         :: 150 of 241
            Pseudo Genes (internal stop)      :: 44 of 241
            Pseudo Genes (multiple problems)  :: 38 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027968.1.
            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..3627
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="VE-T9"
                     /db_xref="taxon:562"
                     /plasmid="pVE-T9_5"
                     /geo_loc_name="Viet Nam:Hanoi"
                     /lat_lon="20.96321052 N 105.81806181 E"
                     /collection_date="2020-07-03"
     gene            complement(14..>433)
                     /locus_tag="QQK52_RS23565"
                     /old_locus_tag="VET9_45350"
                     /pseudo=""
     CDS             complement(14..>433)
                     /locus_tag="QQK52_RS23565"
                     /old_locus_tag="VET9_45350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012477181.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /name="IS1 family transposase"
     gene            complement(776..1375)
                     /locus_tag="QQK52_RS23570"
     CDS             complement(776..1375)
                     /locus_tag="QQK52_RS23570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000430080.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNVR domain-containing protein"
                     /protein_id="WP_284345375.1"
                     /translation="MSIILFVVFSLILSSIFLLINKNKINIKYELNMITNSPSMIINCG
                     SDFYCKANIIQSIINNKSKSITSNIDERGKKIILSWAGDDRYKPLVTAEVNAIHKAIDD
                     WYIQDYKTYKSIVNNQDSNYINGTETYAKVALLTKINTTGEKNFISINDEIVNKKYKPA
                     LIMVLTLIVAVIFSSLYHIIKRSILEYKNKLNKSFY"
                     /name="GNVR domain-containing protein"
     gene            2560..2709
                     /locus_tag="QQK52_RS23575"
                     /old_locus_tag="VET9_45360"
     CDS             2560..2709
                     /locus_tag="QQK52_RS23575"
                     /old_locus_tag="VET9_45360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001442891.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          2352..2567
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="88.182"
                     /coverage="100.0"
                     /evalue="3.41e-66"
     Typing          complement(1885..2402)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.84"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atagtgcatc caattagtag aacatgtgtt tttcgataac cgctccgatc actttttcgt
       61 ggatctcaac tgagcgtgag aagcagattg ttttacgagc caaccgctta atgcgggtgc
      121 gtagcgtcag attattacgc tcaatgcgtt gggtgaatat tttgccggtc agatgcttat
      181 tcttcggcat cacccggcca tagctgccca agtcatcgct ggtgagcatg ccgatgttga
      241 agggtgtaag cagtgccagt agcttccgac acgtttgatc ggttcgggaa ccaaacgtgt
      301 cggccagtac accgcctgtt ttggtgttgt acgcgtacca gagccagtgt tgccgggctt
      361 tactgccaat gtagctccat tgctcatcaa gctcgcagat aagcgccata tcagcatggg
      421 caacaggcga agaaagcccg tatcatacat tagattcaac taattagagg catcacccag
      481 aatcttcatg ctaaaggtga gttatggcat cagtcagctg tagatggtct aatgaaatta
      541 tgtgtgtatc ttaaaaaatg gagatcgcga ggtgaccaat cggattcctc atgggaataa
      601 aaactgctgc agttggccca gtgccacgga gaatcagtta ggcaatggaa gggtaagaaa
      661 tagaactgac tgcccttatt cacttgaggt ttatcgggag gcccgctatt agcgggcttt
      721 tctgcatctg gcgtgtaacg gatgttgcta gagtacggtt attaatcgtt acaggctaat
      781 aaaaagactt gtttaactta tttttatatt caagtataga tctttttatt atatgataca
      841 aggaggaaaa gataacggct acaattaacg ttagaaccat aattaaagct ggtttatact
      901 ttttattcac tatttcatca tttattgaaa tgaagttttt ttctccggta gtgtttattt
      961 ttgttaataa tgcaactttt gcatatgttt ccgtgccatt tatatagttg ctgtcctggt
     1021 tgttaactat gcttttataa gttttataat cttggatgta ccagtcatca atagctttat
     1081 ggatagcgtt tacttcagcg gtaaccaggg gtttgtaacg gtcatcacca gcccatgaca
     1141 ggataatttt ttttcctctt tcatctatat ttgatgttat agacttgctt ttattgttta
     1201 tgattgattg tatgatattc gctttgcaat aaaagtcaga cccacagtta ataatcatac
     1261 ttggcgaatt agtgatcatg tttaattcgt actttatatt tattttattt ttgtttatca
     1321 gcaagaaaat agatgacaaa attaatgaga aaacaacaaa taaaataata ctcacgattt
     1381 ttttcttaag aaagagaaat aactcgatga aatcaatatc aggtgaattg ttttccattt
     1441 tcatatacca acaatagtta ttaaattata gcttaaataa ataaataaaa ttaaaatagc
     1501 cgtgatgaat attttcgccg atttagtata tttcattttg aaatccaatc aaataaaaaa
     1561 cattttacct attatttagg tgtgagaaaa ctcctaaaat caaatttttt gtttgttttt
     1621 tgttcgctca tgtctatgga gagagttgtt atcagcctgt atcctttcca catattttaa
     1681 gatcttcttg agatccttgt gttacagccg taatctcttg gtctgaaaac gaaaaaaccg
     1741 ccctgcaagg cggtttttcg aaggttctct gagctaccaa ctctttgaac cgaggtaact
     1801 ggcttggagg agcgcagtca ccaaaacttg tcctttcagt ttagccttaa ccggcgcatg
     1861 acttcaagac taactcctct aaatcaatta ccagtggctg ctgccagtgg tgcttttgca
     1921 tgtctttccg ggttggactc aagacgatag ttaccggata aggcgcagcg gtcggactga
     1981 acggggggtt cgtgcataca gtccagcttg gagcgaactg cctacccgga actgagtgtc
     2041 aggcgtggaa tgagacaaac gcggccataa cagcggaatg acaccggtaa accgaaaggc
     2101 aggaacagga gagcgcacga gggagccatc agggggaaac gcctggtatc tttatagtcc
     2161 tgtcgggttt cgccaccact gatttgagcg tcagatttcg tgatgcttgt caggggggcg
     2221 gagcctatgg aaaaacggca gcgccgcatc ctttttccgg cctttcctga cttgagtgcc
     2281 atctctttat cttgtcattc gtgagcaggt aacgcccgcc gcagcctcac ggcaggagcg
     2341 tagcgaccga gtgagcgagg aggcgtcata tcaccgtaac tcccattttc tcccttacgc
     2401 cctgtagctg cattttcccc tgtcacatga agcactttca ttaggtgcta ctccgccgta
     2461 acatattcag ccactgtaca ctccgctagc gctacgtgac tggttcaggg ctgcgctccg
     2521 aagcccgcta acaacctctc cgctactgga tatcacccca tgccatctga atatgatgaa
     2581 caactggatt cgactgatac gcagcttccc ggcgaatatg acctttttga tttaatggcg
     2641 caggttacag aagagaacct gcacgccccg gtggattttg ggccgcctgt cggccgggaa
     2701 gcgttatagc tttttcgctt acccgcgtac gtgtaatacg ccggtattac atcttatttc
     2761 tttattttca tgtgattaca ggtggttgta atacgttgcg tattacataa ataaacggga
     2821 acttcagttt ttacctttta attcatgcaa ttgcgatgaa aatcgcggtt gcgtatggtg
     2881 tatggccatt taagagataa agaatcatct ccttaccggg ctgagctttg cctattctga
     2941 ggagatctgt gaaaaaaagc gtccataact agctcgttca tacttgtatg aacagcttat
     3001 tcctcctgac tactaataaa ctacagcgtc actactgatt tactactgat ttactacaaa
     3061 ccggaggggg ggactacaga aacactactg atttactact gatttactac aaatcggagg
     3121 aggatgacta cttatctact actgatttac tactgaatta cgtcataaca gttctctgaa
     3181 ccattcgtac atccgacccc cttctcttca tgcttgatgc tcttgccaac gcttcacggt
     3241 cacgcaataa attgcgtccc cgttcaccgt tttcggatga gaagaacgtc gaaaacagga
     3301 cttccactgg ctgcacggcg tgaaattctg cgctatgcac ttgtgcgcat actcatgcat
     3361 gccgtaaaaa tagagcctgc gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt
     3421 accggtttcc cgtcagaaac gccctgagag cctctcaggc ggtgcacgca acggatgtta
     3481 tggtaaatta ggcgcatgat aactcattcc gcatatatta ttttctttag taacgtatgg
     3541 acaggatatt ggtaaatgga ttcagcaaaa aaaaacggga ttgatgaagc tgaaatgcag
     3601 acttatatat ccacggttca gaatctg
//
