LOCUS       CP088718                3445 bp    DNA     circular BCT 09-DEC-2021
DEFINITION  Escherichia coli strain B16EC1174 plasmid pB16EC1174-3, complete
            sequence.
ACCESSION   CP088718
VERSION     CP088718.1
DBLINK      BioProject: PRJNA782071
            BioSample: SAMN23391582
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3445)
  AUTHORS   Yoon,E.-J., Choi,Y.J., Kim,D., Won,D., Choi,J.R. and Jeong,S.H.
  TITLE     Chromosomal integration and amplification of group 9 blaCTX-M genes
            in Escherichia coli expand the spectrum of resistance under
            antimicrobial pressure
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3445)
  AUTHORS   Yoon,E.-J., Choi,Y.J., Kim,D., Won,D., Choi,J.R. and Jeong,S.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-NOV-2021) Research Institute of Bacterial Resistance,
            Yonsei University College of Medicine, Gangnam Severance Hospital,
            Yonsei, Seoul 06273, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: other: SMRTLink v. v9.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 243x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/02/2021 13:42:41
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.3
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,687
            CDSs (total)                      :: 4,576
            Genes (coding)                    :: 4,360
            CDSs (with protein)               :: 4,360
            Genes (RNA)                       :: 111
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 216
            CDSs (without protein)            :: 216
            Pseudo Genes (ambiguous residues) :: 0 of 216
            Pseudo Genes (frameshifted)       :: 86 of 216
            Pseudo Genes (incomplete)         :: 160 of 216
            Pseudo Genes (internal stop)      :: 36 of 216
            Pseudo Genes (multiple problems)  :: 55 of 216
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..3445
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B16EC1174"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pB16EC1174-3"
                     /geo_loc_name="South Korea"
                     /lat_lon="37.68 N 126.77 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            10..240
                     /locus_tag="LQR06_00825"
     CDS             10..240
                     /locus_tag="LQR06_00825"
                     /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="UGI40538.1"
                     /translation="MPTSTRSTIRQVQSTKGTATRDIMFCERINDGIERDPQQFFKRAN
                     SKSPEREAQKGDIPRPPESESRPCCATFPLG"
                     /name="hypothetical protein"
     gene            242..262
                     /locus_tag="LQR06_00830"
                     /pseudo=""
     CDS             242..262
                     /locus_tag="LQR06_00830"
                     /inference="COORDINATES: protein motif:HMM:NF015354.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            338..1231
                     /locus_tag="LQR06_00835"
     CDS             338..1231
                     /locus_tag="LQR06_00835"
                     /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="UGI40540.1"
                     /translation="MALFTPPSERGADRGNSGAQGGASARTRSTQPSAKRQQELEQKQK
                     IRTVERSLELLAQYRKVMKTVIQGEERLARLGDANPDALKEHKLLQNAKAKKESLSEWS
                     RRIYEGARYLDKLGRNVVSAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQESV
                     LETAEREENEFRYKLQQAESEWKEKYAAFQRTEGYKYVDPTGLDKYREREILAAVSLEN
                     TRQKVAEEISVARSQMLSLEPELNMSGDEKAQMRHELLAEMALEQQQQEEKALRIQQTW
                     VREASRSNERDQDMER"
                     /name="hypothetical protein"
     gene            1686..2705
                     /locus_tag="LQR06_00840"
     CDS             1686..2705
                     /locus_tag="LQR06_00840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="UGI40539.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVNQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(2966..3412)
                     /locus_tag="LQR06_00845"
     CDS             complement(2966..3412)
                     /locus_tag="LQR06_00845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="UGI40537.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWEKRGKELLAKDSA"
                     /name="conjugal transfer protein TraD"
     Typing          1687..2461
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
ORIGIN
        1 gagatcgcca tgcctaccag tacgcgatcc acaatccgcc aggtgcaatc gacgaaagga
       61 acagccacac gcgatatcat gttttgcgag cggattaatg atggtattga acgcgatccg
      121 cagcaatttt ttaaacgcgc caacagcaaa tcaccggagc gggaggcgca aaaaggcgat
      181 attcccagac cgccggagag cgaaagccgc ccttgttgcg ctacgttccc gctgggctga
      241 tgtgcagaat gagcaccttg cgcgacacgg tcacgagtcg cgcgtagatc atcgttcgct
      301 gaaagaacag ggctcaagcg cacgccggaa gttcatcttg gccctgttca cgccgccatc
      361 tgaacgaggg gcagatcgcg gcaattcagg agcacagggc ggcgcgtcag caagaacgcg
      421 cagcacgcaa cccagcgcca agcgccaaca ggaactggag caaaagcaaa aaatcaggac
      481 agttgagcgt tcactggagt tactggctca gtaccgcaag gttatgaaaa cggtcattca
      541 gggagaggaa aggcttgctc gtttagggga tgccaacccc gatgcgctca aagaacataa
      601 gctgcttcag aatgcgaaag ctaaaaaaga atctctttcc gaatggagca ggcgaatata
      661 tgaaggggca cggtatttag acaaactggg gcgtaatgtt gtttccgcac aaagggagct
      721 acgagagtta caggaacaac gcaatgctct gaatgggatt cgtggcctgt ttcggggggc
      781 tgacaaaagg gagattgatg cgcgtattct ggagcaagaa agcgtgctgg aaaccgccga
      841 acgtgaagag aatgagttca ggtacaagct acagcaagct gagtccgagt ggaaagagaa
      901 atacgctgct tttcagcgta ccgagggata taagtacgtt gatcctacgg ggctggacaa
      961 gtacagagaa cgtgagattc tggccgcagt ctctttagag aacaccaggc aaaaagttgc
     1021 cgaagaaata tccgttgccc gtagccagat gttatctctg gagcctgaac ttaatatgtc
     1081 tggagatgaa aaagctcaaa tgcgacatga gttactggca gaaatggcgt tggaacagca
     1141 gcaacaggaa gaaaaagcgc tgcgtataca gcaaacctgg gtcagagagg catctcgtag
     1201 taacgaacgt gatcaagata tggagcgttg aaaatgtagc aatatcggga ctgcgccccg
     1261 aaccccgcca acgtttcacg gaacgcgaaa aaattccgcg tcccgttcac cgttttctga
     1321 tgagaaagtt tgctgttttg acccgttcgc ccttctgaac gctcgaaaca gatcgcgcat
     1381 tgctttcgtg aatagttatg cagcctccta aaaacaattc tgccgcgttt ttctggttct
     1441 tcctggtgtt tccttgtatt tctgcgtttt ttgcgtcaga aagcgtctga gagcgtttta
     1501 agggggcgca caacgggagt tatggtaaat ggatcggttt tgcgggaagg ctcgacaggt
     1561 tttgttgttg ggggtagtgt aagcgactga aaaacaaacg cccctgaaat tcgtgtctct
     1621 ccgccaagat tgtcacgaga atacaggggc gaggtcggtc gataacctgg aaggaatcgt
     1681 aacacatgag cgccgcgctt caatacttcg aagaaaattt accccaccgc ccctatcaca
     1741 cggatgatct cgctttcggc cttcgcatct ccggcaaagg gcgtgcgctt cttgcgcggt
     1801 acatccagca gaaccagcct catgcgcagt tctggctggt ttttgacgtt gaccgcgagg
     1861 gggctgcgat tgactggagc gaccggaacg cccccgcgcc gaacatcacc gttaaaaatc
     1921 ctgtgaacgg acacgctcac ctgctctacg cactcaacat cgccgtgaga accgcgcctg
     1981 atgcctcggt taaggcgctg aaatatgccg cagcggttga acgttcgctg tgtgagaaac
     2041 tttgtgctga tgtgaactac agcggcctga tttgcaaaaa tccgttccac ctggaatggc
     2101 aggtgatgga gtggcgcgag gacgcctata ccctcgatga actggcagat tatctcgatt
     2161 tgagcgcctc agagcgtcgt agcatcgata aacattacgg gatggggcga aactgccacc
     2221 tgttcgaaat gacgcgcaaa tgggcttaca gggcgattcg tcagggctgg ccagcgttct
     2281 cacagtggct tgaagcggtg aaccagcgtg tcgaaatgta caatgcatcg cttcccgttc
     2341 cgctttcact ggctgaatgt cgggctattg gcaagagcat tgcgaaatac acgcacagga
     2401 acttcacgcc ggaaactttc gcacagtatg tggctgatac gcacacgcca gaaattcagg
     2461 cagcacgcgg tcgcaagggc gggaaggcca attcgtcaga aaatcagtcg gacaaaggga
     2521 aaaaaagcgc cgctgttcgg tggactgcta acgacgacaa acgtcgtagg gcgcttgata
     2581 tgtatatctt gggagcgtca acggaagata ttgcagtggc ggttggtgtt agcagccgga
     2641 ctattcgacg ctggatggat aattctggag aatggctaac aaagaaacaa ataattaaat
     2701 gttagttaac aaagaagcaa caaaaccccc cgttttttgt taatggttgg ttaaattcgc
     2761 ggacatgaac aagcctatat cagataacag cgcctttcgg cgtctttttg agcagcgggc
     2821 tttccggcgg ttttctcctc tcagcccagc aatggtgcgg cttaccgcat gattgaggtg
     2881 gtcgtgctcg ccgcagtctc atgaccgagc gtagcgagcg aatgagcgag gaagcaccag
     2941 ggaaccggaa cgtgaacgga ggctcttacg cactgtcttt ggcgagtagc tctttcccgc
     3001 gtttttccca ttcctgccat ttgggatggt tgcgcggtag ctctgcgatt cctgcgagtg
     3061 cgcctaccag ttcggcagca ctaaactttg gttttccggt tttgctgtcc accagtcctg
     3121 ccacaatcat gaggcctgcg gccttgtaaa gttcatgatc ccgcgccttt cgttctgccc
     3181 ttgcggctgc cttccgttct gccgctatga ttgccgttac cctggctttt gctgcggctg
     3241 ctttctctgc ggttttttct gcccgtatca gtgcggacaa cgttttttca tccgtcgttg
     3301 ttcggttttt tttctctgcc agtaacacaa gtaatctctg ctgctctgac ggtgatttca
     3361 gtccgttgat gtaggcaatt tttgcactta accactcttc acgatttgtc attcttacct
     3421 ctgcactttt gccgttaatg tgagt
//
