LOCUS       CP088634                6560 bp    DNA     circular BCT 09-DEC-2021
DEFINITION  Escherichia coli strain C17EC0063 plasmid pC17EC0063-2, complete
            sequence.
ACCESSION   CP088634
VERSION     CP088634.1
DBLINK      BioProject: PRJNA782071
            BioSample: SAMN23391613
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6560)
  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  JOURNAL   Unpublished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 6560)
  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                   :: 440x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/02/2021 11:55:51
            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)                     :: 5,137
            CDSs (total)                      :: 5,018
            Genes (coding)                    :: 4,754
            CDSs (with protein)               :: 4,754
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 112 of 264
            Pseudo Genes (incomplete)         :: 193 of 264
            Pseudo Genes (internal stop)      :: 55 of 264
            Pseudo Genes (multiple problems)  :: 81 of 264
            ##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..6560
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="C17EC0063"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pC17EC0063-2"
                     /geo_loc_name="South Korea"
                     /lat_lon="37.34 N 127.92 E"
                     /collection_date="2017"
                     /collected_by="Kor-GLASS"
     gene            complement(1..308)
                     /locus_tag="LQR25_25380"
                     /pseudo=""
     CDS             complement(1..308)
                     /locus_tag="LQR25_25380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_312926.1"
                     /note="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="FAD-binding protein"
                     /name="FAD-binding protein"
     gene            complement(444..559)
                     /gene="rrf"
                     /locus_tag="LQR25_25385"
     rRNA            complement(444..559)
                     /gene="rrf"
                     /locus_tag="LQR25_25385"
                     /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            complement(662..3567)
                     /locus_tag="LQR25_25390"
     rRNA            complement(662..3567)
                     /locus_tag="LQR25_25390"
                     /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            complement(3750..3825)
                     /locus_tag="LQR25_25395"
     tRNA            complement(3750..3825)
                     /locus_tag="LQR25_25395"
                     /product="tRNA-Ala"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.7"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:complement(3790..3792),aa:Ala,seq:tgc)
                     /name="tRNA-Ala"
     gene            complement(3868..3944)
                     /locus_tag="LQR25_25400"
     tRNA            complement(3868..3944)
                     /locus_tag="LQR25_25400"
                     /product="tRNA-Ile"
                     /inference="COORDINATES: profile:tRNAscan-SE:2.0.7"
                     /note="Derived by automated computational analysis using
                     gene prediction method: tRNAscan-SE."
                     /anticodon=(pos:complement(3908..3910),aa:Ile,seq:gat)
                     /name="tRNA-Ile"
     gene            complement(4013..5551)
                     /locus_tag="LQR25_25405"
     rRNA            complement(4013..5551)
                     /locus_tag="LQR25_25405"
                     /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            6166..6318
                     /locus_tag="LQR25_25410"
     CDS             6166..6318
                     /locus_tag="LQR25_25410"
                     /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="UGH15011.1"
                     /translation="MQQRRPVRRALLSVSDKAGIVEFAQALSARGVELLSTGGTARLLA
                     EKCLR"
                     /name="hypothetical protein"
ORIGIN
        1 accaggcata ccttcctgca aagtgtattt tacaaggcga tgcagttttc tccggctcct
       61 acatgtaaat accacgcatc aggttcatca tgaatttcga tacctttgat ccggttgatg
      121 atcaccgtgc cgcgatagtc ttccagaaaa agtacattac ttccttcacc cagaataaga
      181 acgggttgtc cttctgcggt tgcatgctgc aggcattgag taattgttgt ttcgtcttcg
      241 gcacatacaa tgtgctgagc attatgatca atgccaaatg tgttccaggg ttttaaggag
      301 tggttcatag ctgctttcct gatgcaaaaa cgaggctagt ttaccgtatc tgtgggggga
      361 tggttgtaga taggacgaca ggaagagttt tatagaaacg caaaaggccc agtcttccga
      421 ctgggccttt cgctaaattt gatgcctggc agttccctac tctcgcatgg ggagacccca
      481 cactaccatc ggcgctacgg cgtttcactt ctgagttcgg catggggtca ggtgggacca
      541 ccgcgctaag gccgccaggc aaattctgtt ttatcaacac gtcccgttat gacctgtcga
      601 tttaatctgc tatcaagctt acttatcgat gtctcttccg ccaaaacatc ttcggcgttg
      661 taaggttaag cctcacggtt cattagtacc ggttagctca acgcatcgct gcgcttacac
      721 acccggccta tcaacgtcgt cgtcttcaac gttccttcag gactctcaag gagtcaggga
      781 gaactcatct cggggcaagt ttcgtgctta gatgctttca gcacttatct cttccgcatt
      841 tagctaccgg gcagtgccat tggcatgaca acccgaacac cagtgatgcg tccactccgg
      901 tcctctcgta ctaggagcag cccccctcag ttctccagcg cccacggcag atagggaccg
      961 aactgtctca cgacgttcta aacccagctc gcgtaccact ttaaatggcg aacagccata
     1021 cccttgggac ctacttcagc cccaggatgt gatgagccga catcgaggtg ccaaacaccg
     1081 ccgtcgatat gaactcttgg gcggtatcag cctgttatcc ccggagtacc ttttatccgt
     1141 tgagcgatgg cccttccatt cagaaccacc ggatcactat gacctgcttt cgcacctgct
     1201 cgcgccgtca cgctcgcagt caagctggct tatgccattg cactaacctc ctgatgtccg
     1261 accaggatta gccaaccttc gtgctcctcc gttactcttt aggaggagac cgccccagtc
     1321 aaactaccca ccagacactg tccgcaaccc cggtaagggg cccacgttag aacatcaaac
     1381 attaaagggt ggtatttcaa ggtcggctcc atgcagactg gcgtccacac ttcaaagcct
     1441 cccacctatc ctacacatca aggctcaatg ttcagtgtca agctatagta aaggttcacg
     1501 gggtctttcc gtcttgccgc gggtacactg catcttcaca gcgagttcaa tttcactgag
     1561 tctcgggtgg agacagcctg gccatcatta cgccattcgt gcaggtcgga acttacccga
     1621 caaggaattt cgctacctta ggaccgttat agttacggcc gccgtttacc ggggcttcga
     1681 tcaagagctt cgcgttaccg ctaaccccat caattaacct tccggcaccg ggcaggcgtc
     1741 acaccgtata cgtccacttt cgtgtttgca cagtgctgtg tttttaataa acagttgcag
     1801 ccagctggta tcttcgactg atttcagctc cacgagcaag tcgcttcacc tacatatcag
     1861 cgtgccttct cccgaagtta cggcaccatt ttgcctagtt ccttcacccg agttctctca
     1921 agcgccttgg tattctctac ctgaccacct gtgtcggttt ggggtacgat ttgatgttac
     1981 ctgatgctta gaggcttttc ctggaagcag ggcatttgtc gcttcagcac cgtagtgcct
     2041 cgtcatcacg cctcagcctt gattttccgg atttgcctgg aaaaccagcc tacacgctta
     2101 aaccgggaca accgtcgccc ggccaacata gccttctccg tccccccttc gcagtaacac
     2161 caagtacagg aatattaacc tgtttcccat cgactacgcc tttcggcctc gccttagggg
     2221 tcgactcacc ctgccccgat taacgttgga caggaaccct tggtcttccg gcgagcgggc
     2281 ttttcacccg ctttatcgtt acttatgtca gcattcgcac ttctgatacc tccagcatac
     2341 cctcacagta caccttcaca ggcttacaga acgctcccct acccaacaac acatagtgtc
     2401 gctgccgcag cttcggtgca tggtttagcc ccgttacatc ttccgcgcag gccgactcga
     2461 ccagtgagct attacgcttt ctttaaatga tggctgcttc taagccaaca tcctggctgt
     2521 ctgggccttc ccacatcgtt tcccacttaa ccatgacttt gggaccttag ctggcggtct
     2581 gggttgtttc cctcttcacg acggacgtta gcacccgccg tgtgtctccc gtgataacat
     2641 tctccggtat tcgcagtttg catcgggttg gtaagtcggg atgaccccct tgccgaaaca
     2701 gtgctctacc cccggagatg aattcacgag gcgctaccta aatagctttc gggagaacca
     2761 gctatctccc ggtttgattg gcctttcacc cccagccaca agtcatccgc taatttttca
     2821 acattagtcg gttcgtcctc cagttagtgt taaatcccaa ccttcaacct gcccatggct
     2881 agatcaccgg gtttcgggtc tataccctgc aacttaacgc ccagttaaga ctcggtttcc
     2941 cttcggctcc cctattcggt taaccttgct acagaatata agtcgctgac ccattataca
     3001 aaaggtacgc agtcacccca ttaagaggct cccactgctt gtacgtacac ggttttcagg
     3061 ttctttttca ctcccctcgc cggggttctt ttcgcctttc cctcacggta ctggttcact
     3121 atcggtcagt caggagtatt tagccttgga ggatggtccc cccatattca gacaggatac
     3181 cacgtgtccc gccctactca tcgagctcac agtatgtgca tttttgtgta cggggctgtc
     3241 accctgtatc gcgcgccttt ccagacgctt ccactaacac acacactgat tcaggctctg
     3301 ggctcctccc cgttcgctcg ccgctactgg gggaatctcg gttgatttct tttcctcggg
     3361 tacttagatg tttcagttcc cccggttcgc ctcattaacc tatggattca gttaatgata
     3421 gtgtgtcgaa acacactggg tttccccatt cggaaatcgc cggttataac ggttcatatc
     3481 acctcaccga cgcttatcgc agattagcac gtccttcatc gcctctgact gccagggcat
     3541 ccaccgtgta cgcttagtcg cttaacctca caacccgaag atgtttcttg cgattcatca
     3601 tcgtgttgcg aaaatttgag agactcacga acaactttcg ttgttcagtg tttcaatttt
     3661 cagcttgatc cagattttta aagagcaaaa cttcgcagtg aacctttgca ggtacactct
     3721 gaagtatttt tatttaatca ctacagagat ggtggagcta tgcgggatcg aaccgcagac
     3781 ctcctgcgtg caaagcaggc gctctcccag ctgagctata gccccataac atgtagttaa
     3841 aacctcttca aatttgcggt gcaaatttgg taggcctgag tggacttgaa ccaccgacct
     3901 cacccttatc aggggtgcgc tctaaccacc tgagctacaa gcctgtagag gttttactgc
     3961 tcattttcat cagacaatct gtgtgagcac ttcaaagtac gcttctttaa ggtaaggagg
     4021 tgatccaacc gcaggttccc ctacggttac cttgttacga cttcacccca gtcatgaatc
     4081 acaaagtggt aagcgccctc ccgaaggtta agctacctac ttcttttgca acccactccc
     4141 atggtgtgac gggcggtgtg tacaaggccc gggaacgtat tcaccgtggc attctgatcc
     4201 acgattacta gcgattccga cttcatggag tcgagttgca gactccaatc cggactacga
     4261 cgcactttat gaggtccgct tgctctcgcg aggtcgcttc tctttgtatg cgccattgta
     4321 gcacgtgtgt agccctggtc gtaagggcca tgatgacttg acgtcatccc caccttcctc
     4381 cagtttatca ctggcagtct cctttgagtt cccggccgga ccgctggcaa caaaggataa
     4441 gggttgcgct cgttgcggga cttaacccaa catttcacaa cacgagctga cgacagccat
     4501 gcagcacctg tctcacggtt cccgaaggca cattctcatc tctgaaaact tccgtggatg
     4561 tcaagaccag gtaaggttct tcgcgttgca tcgaattaaa ccacatgctc caccgcttgt
     4621 gcgggccccc gtcaattcat ttgagtttta accttgcggc cgtactcccc aggcggtcga
     4681 cttaacgcgt tagctccgga agccacgcct caagggcaca acctccaagt cgacatcgtt
     4741 tacggcgtgg actaccaggg tatctaatcc tgtttgctcc ccacgctttc gcacctgagc
     4801 gtcagtcttc gtccaggggc cgccttcgcc accggtattc ctccagatct ctacgcattt
     4861 caccgctaca cctggaattc taccccctct acgagactca agcttgccag tatcagatgc
     4921 agttcccagg ttgagcccgg ggatttcaca tctgacttaa caaaccgcct gcgtgcgctt
     4981 tacgcccagt aattccgatt aacgcttgca ccctccgtat taccgcggct gctggcacgg
     5041 agttagccgg tgcttcttct gcgggtaacg tcaatgagca aaggtattaa ctttactccc
     5101 ttcctccccg ctgaaagtac tttacaaccc gaaggccttc ttcatacacg cggcatggct
     5161 gcatcaggct tgcgcccatt gtgcaatatt ccccactgct gcctccgtag gagtctggac
     5221 cgtgtctcag ttccagtgtg gctggtcatc ctctcagacc agctagggat cgtcgcctag
     5281 gtgagccgtt accccaccta ctagctaatc ccatctgggc acatccgatg gcaagaggcc
     5341 cgaaggtccc cctctttggt cttgcgacgt tatgcggtat tagctaccgt ttccagtagt
     5401 tatccccctc catcgggcag tttcccagac attactcacc cgtccgccac tcgtcagcaa
     5461 agcagcaagc tgctttctgt taccgttcga cttgcatgtg ttaggcctgc cgccagcgtt
     5521 caatctgagc catgatcaaa ctcttcaatt taaaagtttg atgctcgtga attaaacttc
     5581 gtaatgaatt acgtgttcac tcagagactt ggtattcatt tttcgtcttg cgacgtcaag
     5641 aatccgtatc ttcgagtgcc cacacagatt gtctgataaa ttgttaaaga gcagttgcga
     5701 cgcggctttc agctcactgt cgcgaggtgg cgtatattac gctttcctct ttcagagtca
     5761 accctgaatt tcaggatttt tctcttcaac cgaaccggct gtttgtgtga agtgattcac
     5821 atccgccgtg tcgatggagg cgcattatag ggagttctcc gcaggccgca atagaaaaat
     5881 tgcagaaaaa atgactgact gctgcattcc ccagcaaaac cccgctttat accttttaca
     5941 cacagagtta tccacaatca tcaatgtaat ttctgtattt ttcccacggt agccactgtc
     6001 aaaattgtga tcaccattga aagagaaaaa ttcgcgagcg ttgcgcaaac gttttcgtta
     6061 caatgcgggc gaaaaaataa ggatgccccg ttaggggcgt tagctgagtt tttcgcgaaa
     6121 aattcagcta acgctctctg taatagtcaa atccagggga ttaccatgca acaacgtcgt
     6181 ccagtccgcc gcgctctgct cagtgtttct gacaaagccg gtatcgtcga attcgcccag
     6241 gcactttccg cacgcggtgt ggagctgctg tctacagggg gcactgcccg tctgttagca
     6301 gaaaaatgtc tgcggtaacc gaagtttccg attacaccgg tttcccggag atgatggatg
     6361 gacgcgtgaa gaccctgcat ccgaaagtac atggtggcat tctgggccgt cgcggccagg
     6421 acgatgccat tatggaagaa catcagatcc agcctatcga tatggtggtt gttaacctgt
     6481 atccgttcgc ccagaccgtc gctcgtgaag gctgctcgct ggaagatgcg gtagagaaca
     6541 tcgatatcgg cggcccaacg
//
