LOCUS       CP088871                7211 bp    DNA     circular BCT 09-DEC-2021
DEFINITION  Escherichia coli strain A16EC0054 plasmid pA16EC0054-2, complete
            sequence.
ACCESSION   CP088871
VERSION     CP088871.1
DBLINK      BioProject: PRJNA782071
            BioSample: SAMN23391539
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 7211)
  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  JOURNAL   Unpublished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 7211)
  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                   :: 246x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/02/2021 14:01:24
            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)                     :: 5,157
            CDSs (total)                      :: 5,031
            Genes (coding)                    :: 4,837
            CDSs (with protein)               :: 4,837
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 194
            CDSs (without protein)            :: 194
            Pseudo Genes (ambiguous residues) :: 0 of 194
            Pseudo Genes (frameshifted)       :: 82 of 194
            Pseudo Genes (incomplete)         :: 121 of 194
            Pseudo Genes (internal stop)      :: 48 of 194
            Pseudo Genes (multiple problems)  :: 48 of 194
            CRISPR Arrays                     :: 2
            ##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..7211
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="A16EC0054"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pA16EC0054-2"
                     /geo_loc_name="South Korea"
                     /lat_lon="37.57 N 126.98 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            complement(1..730)
                     /gene="purH"
                     /locus_tag="LQQ67_25755"
                     /pseudo=""
     CDS             complement(1..730)
                     /gene="purH"
                     /locus_tag="LQQ67_25755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005634210.1"
                     /note="involved in de novo purine biosynthesis;
                     frameshifted; 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="bifunctional
                     phosphoribosylaminoimidazolecarboxamide
                     formyltransferase/IMP cyclohydrolase"
                     /name="purH"
     gene            1340..2879
                     /locus_tag="LQQ67_25760"
     rRNA            1340..2879
                     /locus_tag="LQQ67_25760"
                     /product="16S ribosomal RNA"
                     /inference="COORDINATES: nucleotide
                     motif:Rfam:14.4:RF00177"
                     /inference="COORDINATES: profile:INFERNAL:1.1.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: cmsearch."
                     /db_xref="RFAM:RF00177"
                     /name="16S ribosomal RNA"
     gene            2965..3040
                     /locus_tag="LQQ67_25765"
     tRNA            2965..3040
                     /locus_tag="LQQ67_25765"
                     /product="tRNA-Glu"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.7"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:2999..3001,aa:Glu,seq:ttc)
                     /name="tRNA-Glu"
     gene            3234..6137
                     /locus_tag="LQQ67_25770"
     rRNA            3234..6137
                     /locus_tag="LQQ67_25770"
                     /product="23S ribosomal RNA"
                     /inference="COORDINATES: nucleotide
                     motif:Rfam:14.4:RF02541"
                     /inference="COORDINATES: profile:INFERNAL:1.1.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: cmsearch."
                     /db_xref="RFAM:RF02541"
                     /name="23S ribosomal RNA"
     gene            6237..6351
                     /gene="rrf"
                     /locus_tag="LQQ67_25775"
     rRNA            6237..6351
                     /gene="rrf"
                     /locus_tag="LQQ67_25775"
                     /product="5S ribosomal RNA"
                     /inference="COORDINATES: nucleotide
                     motif:Rfam:14.4:RF00001"
                     /inference="COORDINATES: profile:INFERNAL:1.1.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: cmsearch."
                     /db_xref="RFAM:RF00001"
                     /name="rrf"
     gene            6426..6808
                     /locus_tag="LQQ67_25780"
                     /pseudo=""
     CDS             6426..6808
                     /locus_tag="LQQ67_25780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_418435.1"
                     /note="frameshifted; 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            complement(6872..7209)
                     /locus_tag="LQQ67_25785"
                     /pseudo=""
     CDS             complement(6872..7209)
                     /locus_tag="LQQ67_25785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000236991.1"
                     /note="frameshifted; internal stop; incomplete; partial on
                     complete genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="acetyltransferase"
                     /name="acetyltransferase"
ORIGIN
        1 attctcttct atatagaagg cagcctgctg gtggctgttc tcgccgtaac gcatatcctg
       61 cttcttaatg aagttcaggt tcagcgtgcg tgggaagcga ccggcggctt ctttgctttc
      121 accgtggtaa gccggaacca tgctggccga agtagttggc aatcatgctg tcgtaggcgg
      181 cggtgtgttc gaaggctttg atggcaaggt caaagcgagt ttccagagtc aggagccttc
      241 attggcatct atctctttaa taatggcgtc gtagtcgctg ctcttcacac acgattgcga
      301 catctttatg gttcttggcg gcagagcgca ccatcgtcgg gccgccgata tcgatgtttc
      361 tcaaccgcat cttccagcga gcagccttca cgagcaacgg tctgggcgaa cggatacagg
      421 ttaaccaacc accatatcga taggctggat ctgatgttct tccataatgg tatcgtcctg
      481 ccgcgacggc ccagaattcc acatgtactt tcggatgcag ggtcttcacg cgtccatcca
      541 tcatctccgg gaaaccggtg taatcggaaa cttcggttac cggcagacct tttttctgct
      601 aacagacggg ctgtgccccc tgtagacagc agctccacac cgcgtgcgga agtgcctggg
      661 cgaattcgac gataccggct ttgtcagaaa cactgagcag aggcgcggcg gactggacac
      721 gttgttgcat ggtaaatccc ctggatttga ctattacaga gagcgttagc tgaatttttc
      781 gcgaaaaact cagctaacgc ccctacgggc atccttattt tcgcccgcat tgtaacgaaa
      841 acgtttgcgc acgctcgcga atttttctct ttcaatggtg atcacaattt tgacagtgtt
      901 taccgtggga aaaatacaga aattacatga tgattgggat aactctgtgc gtaaaaaggt
      961 ataaagcggg ttttgctggg gaatgcagca gtcagtcatt tttctgcaat ttttctattg
     1021 cggcctgcgg agaactccct ataatgcgcc tccatcgaca cggcggatgt gaatcacttc
     1081 acacaaacag ccggttcggt tgaagagaaa aatcctgaaa ttcagggttg actctgaaag
     1141 aggaaagcgt aatatacgcc acctcgcgac agtgagctga aagccgcgtc gcaactgctc
     1201 tttaacaatt tatcagacaa tctgtgtggg cactcgaaga tacggattct taacgtcgca
     1261 agacgaaaaa tgaataccaa gtctcaggag tgaacacgta attcattacg aagtttaatt
     1321 ctttgagcat caaactttta aattgaagag tttgatcatg gctcagattg aacgctggcg
     1381 gcaggcctaa cacatgcaag tcgaacggta acaggaagca gcttgctgtt tgctgacgag
     1441 tggcggacgg gtgagtaatg tctgggaaac tgcctgatgg agggggataa ctactggaaa
     1501 cggtagctaa taccgcataa cgtcgcaaga ccaaagaggg ggaccttagg gcctcttgcc
     1561 atcggatgtg cccagatggg attagctagt aggtggggta acggctcacc taggcgacga
     1621 tccctagctg gtctgagagg atgaccagcc acactggaac tgagacacgg tccagactcc
     1681 tacgggaggc agcagtgggg aatattgcac aatgggcgca agcctgatgc agccatgccg
     1741 cgtgtatgaa gaaggccttc gggttgtaaa gtactttcag cggggaggaa gggagtaaag
     1801 ttaatacctt tgctcattga cgttacccgc agaagaagca ccggctaact ccgtgccagc
     1861 agccgcgtaa tacggagggt gcaagcgtta atcggaatta ctgggcgtaa agcgcacgca
     1921 ggcggtttgt taagtcagat gtgaaatccc cgggctcaac ctgggaactg catctgatac
     1981 tggcaagctt gagtctcgta gaggggggta gaattccagg tgtagcggtg aaatgcgtag
     2041 agatctggag gaataccggt ggcgaaggcg gccccctgga cgaagactga cgctcaggtg
     2101 cgaaagcgtg gggagcaaac aggattagat accctggtag tccacgccgt aaacgatgtc
     2161 gacttggagg ttgtgccctt gaggcgtggc ttccggagct aacgcgttaa gtcgaccgcc
     2221 tggggagtac ggccgcaagg ttaaaactca aatgaattga cgggggcccg cacaagcggt
     2281 ggagcatgtg gtttaattcg atgcaacgcg aagaacctta cctggtcttg acatccacgg
     2341 aagttttcag agatgagaat gtgccttcgg gaaccgtgag acaggtgctg catggctgtc
     2401 gtcagctcgt gttgtgaaat gttgggttaa gtcccgcaac gagcgcaacc cttatccttt
     2461 gttgccagcg gtccggccgg gaactcaaag gagactgcca gtgataaact ggaggaaggt
     2521 ggggatgacg tcaagtcatc atggccctta cgaccagggc tacacacgtg ctacaatggc
     2581 gcatacaaag agaagcgacc tcgcgagagc aagcggacct cataaagtgc gtcgtagtcc
     2641 ggattggagt ctgcaactcg actccatgaa gtcggaatcg ctagtaatcg tggatcagaa
     2701 tgccacggtg aatacgttcc cgggccttgt acacaccgcc cgtcacacca tgggagtggg
     2761 ttgcaaaaga agtaggtagc ttaaccttcg ggagggcgct taccactttg tgattcatga
     2821 ctggggtgaa gtcgtaacaa ggtaaccgta ggggaacctg cggttggatc acctccttac
     2881 cttaaagaag cgtactttgc agtgctcaca cagattgtct gatagaaagt gaaaagcaag
     2941 gcgtcttgcg aagcagactg atacgtcccc ttcgtctaga ggcccaggac accgcccttt
     3001 cacggcggta acaggggttc gaatccccta ggggacgcca cttgctggtt tgtgagtgaa
     3061 agtcacctgc cttaatatct caaaactcat cttcgggtga tgtttgagat atttgctctt
     3121 taaaaatctg gatcaagctg aaaattgaaa cactgaacaa cgagagttgt tcgtgagtct
     3181 ctcaaatttt cgcaacacga tgatgaatcg caagaaacat cttcgggttg tgaggttaag
     3241 cgactaagcg tacacggtgg atgccctggc agtcagaggc gatgaaggac gtgctaatct
     3301 gcgataagcg tcggtgaggt gatatgaacc gttataaccg gcgatttccg aatggggaaa
     3361 cccagtgtgt ttcgacacac tatcattaac tgaatccata ggttaatgag gcgaaccggg
     3421 ggaactgaaa catctaagta ccccgaggaa aagaaatcaa ccgagattcc cccagtagcg
     3481 gcgagcgaac ggggaggagc ccagagcctg aatcagtgtg tgtgttagtg gaagcgtctg
     3541 gaaaggcgcg cgatacaggg tgacagcccc gtacacaaaa atgcacatat tgtgagctcg
     3601 atgagtaggg cgggacacgt ggtatcctgt ctgaatatgg ggggaccatc ctccaaggct
     3661 aaatactcct gactgaccga tagtgaacca gtaccgtgag ggaaaggcga aaagaacccc
     3721 ggcgagggga gtgaaaaaga acctgaaacc gtgtacgtac aagcagtggg agcctcttta
     3781 tggggtgact gcgtaccttt tgtataatgg gtcagcgact tatattctgt agcaaggtta
     3841 accgaatagg ggagccgaag ggaaaccgag tcttaactgg gcgttaagtt gcagggtata
     3901 gacccgaaac ccggtgatct agccatgggc aggttgaagg ttgggtaaca ctaactggag
     3961 gaccgaaccg actaatgttg aaaaattagc ggatgacttg tggctggggg tgaaaggcca
     4021 atcaaaccgg gagatagctg gttctccccg aaagctattt aggtagcgcc tcgtgaattc
     4081 atctccgggg gtagagcact gtttcggcaa gggggtcatc ccgacttacc aacccgatgc
     4141 aaactgcgaa taccggagaa tgttatcacg ggagacacac ggcgggtgct aacgtccgtc
     4201 gtgaagaggg aaacaaccca gaccgccagc taaggtccca aagtcatggt taagtgggaa
     4261 acgatgtggg aaggcccaga cagccaggat gttggcttag aagcagccat catttaaaga
     4321 aagcgtaata gctcactggt cgagtcggcc tgcgcggaag atgtaacggg gctaaaccat
     4381 gcaccgaagc tgcggcagcg acactatgtg ttgttgggta ggggagcgtt ctgtaagcct
     4441 gtgaaggtgg cctgtgaggg ttgctggagg tatcagaagt gcgaatgctg acataagtaa
     4501 cgataaaacg ggtgaaaagc ccgctcgccg gaagaccaag ggttcctgtc caacgttaat
     4561 cggggcaggg tgagtcgacc cctaaggcga ggccgaaagg cgtagtcgat gggaaacagg
     4621 ttaatattcc tgtacttggt gttactgcga aggggggacg gagaaggcta tgttggccgg
     4681 gcgacggttg tcccggttta agcgtgtagg ctggttttcc aggcaaatcc ggaaaaccaa
     4741 ggctgaggcg tgatgacgag gcactacggt gctgaagcga caaatgccct gcttccagga
     4801 aaagcctcta agcatcaggt aacatcaaat cgtaccccaa accgacacag gtggtcaggt
     4861 agagaatacc aaggcgcttg agagaactcg ggtgaaggaa ctaggcaaaa tggtgccgta
     4921 acttcgggag aaggcacgct gatatgtagg tgaagcgact tgctcgtgga gctgaaatca
     4981 gtcgaagata ccagctggct gcaactgttt attaaaaaca cagcactgtg caaacacgaa
     5041 agtggacgta tacggtgtga cgcctgcccg gtgccggaag gttaattgat ggggttagcg
     5101 gtaacgcgaa gctcttgatc gaagccccgg taaacggcgg ccgtaactat aacggtccta
     5161 aggtagcgaa attccttgtc gggtaagttc cgacctgcac gaatggcgta atgatggcca
     5221 ggctgtctcc acccgagact cagtgaaatt gaactcgctg tgaagatgca gtgtacccgc
     5281 ggcaagacgg aaagaccccg tgaaccttta ctatagcttg acactgaaca ttgagccttg
     5341 atgtgtagga taggtgggag gctttgaagt gtggacgcca gtctgcatgg agccgacctt
     5401 gaaataccac cctttaatgt ttgatgttct aacgttggcc cgtaatccgg gttgcggaca
     5461 gtgtctggtg ggtagtttga ctggggcggt ctcctcctaa agagtaacgg aggagcacga
     5521 aggttggcta atcctggtcg gacatcagga ggttagtgca atggcataag ccagcttgac
     5581 tgcgagcgtg acggcgcgag caggtgcgaa agcaggtcat agtgatccgg tggttctgaa
     5641 tggaagggcc atcgctcaac ggataaaagg tactccgggg ataacaggct gataccgccc
     5701 aagagttcat atcgacggcg gtgtttggca cctcgatgtc ggctcatcac atcctggggc
     5761 tgaagtaggt cccaagggta tggctgttcg ccatttaaag tggtacgcga gctgggttta
     5821 gaacgtcgtg agacagttcg gtccctatct gccgtgggcg ctggagaact gaggggggct
     5881 gctcctagta cgagaggacc ggagtggacg catcactggt gttcgggttg tcatgccaat
     5941 ggcactgccc ggtagctaaa tgcggaagag ataagtgctg aaagcatcta agcacgaaac
     6001 ttgccccgag atgagttctc cctgactcct tgagagtcct gaaggaacgt tgaagacgac
     6061 gacgttgata ggccgggtgt gtaagcgcag cgatgcgttg agctaaccgg tactaatgaa
     6121 ccgtgaggct taaccttaca acgccgaaga tgttttggcg gatgagagaa gattttcagc
     6181 ctgatacaga ttaaatcgac aggtcagaac aggacgtgtt gataaaacag aatttgcctg
     6241 gcggccttag cgcggtggtc ccacctgacc ccatgccgaa ctcagaagtg aaacgccgta
     6301 gcgccgatgg tagtgtgggg tctcccatgc gagagtaggg aactgccagg catcaaatta
     6361 gaaaaacccg gtcaataagg cggggttttt tgcatatcaa ttatttgcat gatgaaggga
     6421 atctcatgtc agttctgtat atccaaattc gtcgtaatca aattactgtt cgcgatcttg
     6481 aaagcaaacg tgaagtgtca ggagatgctg ccttcagtaa ccagcgcctg ttaatcgcca
     6541 attctttgtt gcagaaaaag ttctgcaaga tcttgttctg caactccacc cacgttcaac
     6601 ctggcattct tttttgccag caaaacgtag gatattgttg tgagcgcgct ggaaatgaat
     6661 gagggcggtt tgtcacaggt tgaggaaacg cattcttcat gaagtggtcg caggggcaac
     6721 gttaatgaaa tatcgccagt tccacatcca tgcgcaatca gtggtactca gtgatagtgc
     6781 ggtcctggca atgtttaagc agaaataatc atgtcaccat tggtgggtac gaaacctaaa
     6841 gttcagccca ccgggatgag aaaaaaaccg cctacacccc cacatatgcc agattcagca
     6901 atggatacgg tttccccaaa tcgtccacct cagagcgtcc gtaaccttaa aacccacctc
     6961 ttatagaacc ccaaccgcct gctcattttg ctcattaaca ttggttgtca gttccggggc
     7021 cattgagagc gcatgctcac cagcatccga ccacgccgca gccgcgcaca tcaggatcga
     7081 taaacagcgc atccatatgc tgcccactta acaacataac ccaaccggcc gatcccgcct
     7141 cattaaccgc gaccacaacg gtgcttccgg cagaaaggaa tgcaccagct cttccagctc
     7201 ggcccgatac t
//
