LOCUS       NZ_CP059128             6200 bp    DNA     circular CON 31-AUG-2023
DEFINITION  Escherichia coli strain EC45 plasmid pEc45_3, complete sequence.
ACCESSION   NZ_CP059128
VERSION     NZ_CP059128.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15486686
            Assembly: GCF_019355475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6200)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Whole genome analysis of ESBL producing E.coli ST131 from Ghana
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6200)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JUL-2020) Molecular Microbiology, Tokyo Medical and
            Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1600x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/29/2023 04:39:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,051
            CDSs (total)                      :: 4,930
            Genes (coding)                    :: 4,688
            CDSs (with protein)               :: 4,688
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 242
            CDSs (without protein)            :: 242
            Pseudo Genes (ambiguous residues) :: 0 of 242
            Pseudo Genes (frameshifted)       :: 80 of 242
            Pseudo Genes (incomplete)         :: 155 of 242
            Pseudo Genes (internal stop)      :: 44 of 242
            Pseudo Genes (multiple problems)  :: 35 of 242
            Pseudo Genes (short protein)      :: 4 of 242
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059128.1.
            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..6200
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="EC45"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEc45_3"
                     /geo_loc_name="Ghana"
                     /collection_date="2016"
     gene            complement(50..208)
                     /locus_tag="H0X93_RS25360"
     CDS             complement(50..208)
                     /locus_tag="H0X93_RS25360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     gene            779..928
                     /locus_tag="H0X93_RS24980"
                     /old_locus_tag="H0X93_24875"
     CDS             779..928
                     /locus_tag="H0X93_RS24980"
                     /old_locus_tag="H0X93_24875"
                     /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_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(1673..2113)
                     /locus_tag="H0X93_RS24985"
                     /old_locus_tag="H0X93_24880"
     CDS             complement(1673..2113)
                     /locus_tag="H0X93_RS24985"
                     /old_locus_tag="H0X93_24880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011161230.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     gene            2331..2720
                     /locus_tag="H0X93_RS24990"
                     /old_locus_tag="H0X93_24885"
     CDS             2331..2720
                     /locus_tag="H0X93_RS24990"
                     /old_locus_tag="H0X93_24885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            2764..>3168
                     /locus_tag="H0X93_RS24995"
                     /old_locus_tag="H0X93_24890"
                     /pseudo=""
     CDS             2764..>3168
                     /locus_tag="H0X93_RS24995"
                     /old_locus_tag="H0X93_24890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(3275..4111)
                     /locus_tag="H0X93_RS25000"
                     /old_locus_tag="H0X93_24895"
     CDS             complement(3275..4111)
                     /locus_tag="H0X93_RS25000"
                     /old_locus_tag="H0X93_24895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480968.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     ARG             complement(4112..4869)
                     /name="APH(3'')-Ib"
                     /gene="APH(3'')-Ib"
                     /gene_name="APH(3'')"
                     /tool="rgi"
                     /drug_class="aminoglycoside antibiotic"
                     /identity="99.21"
                     /coverage="94.38"
     ARG             complement(4115..4914)
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(4975..5790)
                     /gene="sul2"
                     /locus_tag="H0X93_RS25010"
                     /old_locus_tag="H0X93_24905"
     ARG             complement(4979..5790)
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             complement(3279..4111)
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          571..744
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          complement(42..647)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggttcacgag accgccatta ccaaaactgt tctttcagtg tagccgcagt caggcctcta
       61 cttcaagacc tcttaatcta tcttctcgtg cactcctgtt actaatggct gctgccagtg
      121 gcgttttgtc gtgtctttcc gggttggact caagttgata gttaccggac aaggcgcagc
      181 ggtcggactg aacggggggt tcgtgcatac agtccagctt ggagcgaact gccttcacgg
      241 aactgagtgt caggcgtgga atgagaaacc gcggccataa cagcggaatg acaccggtaa
      301 accgaaaggc aggaacagga gagcgcacga gggagctacc agggggaaac gcctgggatc
      361 tttatagtcc tgtcgggttt cgccaccact gatttgagcg tcagattttg cgatgcttgt
      421 caggggggcg gagcctatgg aaaaacggct tcgccgtggc cttatctctt ctttgctaag
      481 tgtcttcctg gtatcttcca ggaaatttcc gtccccgtcc gtaagccggt accgctcgcc
      541 gcagccgaac gaccgagcgt agcgagtcag tgagcgagga agcggaatat ctcctgtatc
      601 gcatattctg ctgacgcgcc ggtgctgcct tttttctcct gccacatgaa gcacttcact
      661 gattttcgca atcgtggcaa catagtaagc cagtatacac tccgctagcg ctacatgact
      721 ggttcagggc tgcgccccga aacccgctaa caacctctca gctactggat atcaccccat
      781 gccatctgaa tatgatgaac aactggattc gactgatacg cagcttcccg gcgaatatga
      841 cctttttgat ttaatggcgc aggttactga agagaacctg catgcccctg tggattttgg
      901 gtcgcctgtc ggccgggaag cgttatagct ttttcgcttg cccgcgtacg tggtaatact
      961 ccggtattac cttttatttc tttattttca tgtaattaca gtggattttt aatacccggg
     1021 tattactcgt gaaaacgaaa tattcctttt ttttctttta attcatgcag ttgcgatgaa
     1081 aatcgcggct gcgttaggtg tatgaccatt ttgaggttga aaaataatca accatggcgg
     1141 gtgatttacg caggttaagg ggagatcgtg acaaaaaaag cgttcctcac tgtatcgttc
     1201 atgcctgcat gaacgggtta ttcttcctga ctacagaatt acatcgctcc ttcagttcat
     1261 acatcacttt tacatcactt atacatcact tttacatcat tccttcagct catacgtcac
     1321 tttcatcctc tgtgccattt gtacatcacc cccttcctga acgtgctgac agcgggtttt
     1381 ccggctgcgc cggcaacgct tcacggccac gcaataaatt gcgtccccgt tcaccgtttt
     1441 cggatgggaa gaacgccgga aacaggactt accccggctg aatggtgtga atttccgcgc
     1501 tatgcacttg tgcgcatact catgcatgcc gtaaaaacag agcctgcgcg tttctggcgg
     1561 gttttcgggt ggtttgttgc ctgttttacc ggtttcccgt cagaaacgcc ctgagggcct
     1621 ctcaggcggt gctgataaca gatgttatgg taaatcagag tcacctgcac tgttactctg
     1681 aaccggagcg aaacagccgc gaccagaatc cccgcttttt ttcctgtgcc agcgcgtcag
     1741 ccagacggct aatttcggcc tgtagttgtt ccctctcctc atttcgcagg cggttttctg
     1801 cttcccgcgc catcttgtct tcaagcatta gggtaacagt ctgctgcaga gcgtccagtt
     1861 tctgctgaat gacgtctagc tgagcatttt ccgcctggct aacgacagat ttggagtgtc
     1921 cctccttgtg cctttttggt gtctcagaag tgcgcagctc gccataggcc cgaatcagtt
     1981 cactggtctc gaactcccgg cgatcatttt ttcctgtgcg atagctgaca aggcctttag
     2041 ccatgtcacg atataattgc gagcgcgact ttcctgttaa tttcagtgtc tcttgaactg
     2101 tgtgccatgc cataaaagtg acagtgtctc ctgtgtgtac cgtattgtaa cagcagaaca
     2161 tattactgtt ttaacacaaa aggtctgagg ctgcccgtga ggcgtgaaaa atacacaaaa
     2221 aacctgttga cggtgtggtt ttgacgggcg tagtatttcg aatactgtat ataaacacat
     2281 tgttataaat acagtttttg ctgtttttaa aagtcaaaga ggataatttt atgagtacag
     2341 agttaaatag cggtactgtc ggtggttttg gtcacatggg accaaatgac ccctacaatg
     2401 atggtcatag cggctctgga agttcgggag gtagttttaa cggtggtggt aatggtggcc
     2461 atgataatag tagtggttca tcttatactg catcctttgg tctcatcact ggccgacacc
     2521 cgataactgt cccaggtacg aagaatatta attctgtcga tctttctgct gtcattaata
     2581 acattataca tcatgaaggt gcacgcaata acatgtacct agatactgcg aacaatgtaa
     2641 gagtgggagt gacgggcact ggctggcaat gtctagcaac ggcaggcatt tcggctgagg
     2701 gtaaaagaac tttccgctaa gcgatagact gtatgtaaac acagtattgc aaggacgcgg
     2761 aacatgcctc atgtggcggc caggacggcc agccgggatc gggatactgg tcgttaccag
     2821 agccaccgac ccgagcaaac ccttctctat cagatcgttg acgagtatta cccggcattc
     2881 gctgcgctta tggcagagca gggaaaggaa ttgccgggct atgtgcaacg ggaatttgaa
     2941 gaatttctcc aatgcgggcg gctggagcat ggctttctac gggttcgctg cgagtcttgc
     3001 cacgccgagc acctggtcgc tttcagctgt aagcgtcgcg gtttctgccc gagctgtggg
     3061 gcgcggcgga tggccgaaag tgccgccttg ctggttgatg aagtactgcc tgaacaaccc
     3121 atgcgtcagt gggtgttgag cttcccgttt cagctgcgtt tcctgtttgg ggtcgtttgc
     3181 gggaaggggc ggaatcctac gctaaggctt tggccagcga tattctccgg tgagattgat
     3241 gtgttcccag gggataggag aagtcgcttg atatctagta tgacgtctgt cgcacctgct
     3301 tgatcgcggc cgcgatagct agatcgcgtt gctcctcttc tccatccgcg ttccaagctg
     3361 cggaaaggca cccataagcg tacgcctggt cgagcaggcg acgcggatcg acgtccagcg
     3421 cacgagagaa tgcgtccgcc atctgtgcaa tgcgtctagg atcgagacaa aggtcgtctc
     3481 tgtcagccgg atcgtagaac atattggcgg cgccaaagcc cacttcaccg accagaccga
     3541 cgggatctat caccagccag ccgcgactgg agaacatgat gttttcatga tgcagatcgc
     3601 catgtagccc acgcagttcc gaggcattgc tcatcatttg atcggctata atcgccgcgt
     3661 ggacgtagtc agtttgacaa cctgcgtttt gatcatcgcg cgcccgctga aacaaagctg
     3721 caaagcgatc ccggatcggg agaagggcag aaggcagggg ttcctcagat gcggcataca
     3781 gcttcgccat tagttccgct gcaatttcgg tcgcctggta gtcgccgtgc tcggcaacga
     3841 tgtgagagag cattcgctcc ccggcatatt cgagcaacat cagattgttc tcacgaccga
     3901 gcaaccggac tgctcccctc ccattgcgcc ataccagata gtcggccccg cgcagttcat
     3961 cagcaatgtc ttctataggt ttcaatccct tgacgattgc aggagtcccg tctggcaatg
     4021 aaactttcca aacgaggctg gaaaaggtgt ccgcaatgag aacaggttgc gaaacgtgcc
     4081 aatgagcagg aaaaacaggc ggcatgaaca tcaaccccaa gtcagagggt ccaatcgcag
     4141 atagaaggca aggcgttcgc ggtcgggggc ttcgatcccc aatacattga ataggacagc
     4201 gaaggcgcgc tctgcttcat ctggcgctgc ccagttctct tcggcgttag caatcatgag
     4261 tgccaaatcg gcatagcgat ctgctgttcc gagccgccca aggtcgatca gacccgtgca
     4321 ttgaagagtt ttagggtcca ccatgaagtt cggcatgcag ggatcaccat ggcaaacaac
     4381 catatcggtg cgctcttggt cgagccgcac cggtagctct cgttcgacac gagccaaaag
     4441 atcgagctgc ggcgtactct tgtcctcgtc cggtaagaag tcgggattga cggcattgcg
     4501 ggacaccaca tcaacggcgc gtccgaacat tcgcgacagc ctgcgctcaa acggacattg
     4561 atcaaccgat aggctgtgaa cagcgccaag ttgctgcccc attgacggcc acgctttgag
     4621 caaatccgct ccagacagat cagccgccgg tactcccgga attgccgtta tcaccaagca
     4681 tgcaccctcc tgttcctcct gccagttgat gacctcgggg caagccacac ctcgaccttt
     4741 gagccaaatg aggcggtcac gctctccagc gagctcaccg cggcgggaag caggtgcgat
     4801 tttcgcgaag gcatgcccgt caccacgtcg aaaaacaaaa tcaccagatt ctccgcctct
     4861 gacaggcaac cagtcagaat gcgattcacc aaaaaaaata ttagttcgat ttaatggagg
     4921 ttccttcagt tttctgatga agcgcgaata tagagaaata tcccgaatgt gcagttaacg
     4981 aattcttgcg gtttctttca gcgccgccaa taccgccagc ccgtcgcgca aggggcgcgg
     5041 ctcgtgtgtg cggatgaagt cagctccacc tgcggcggcg gcaagctctg cagcgagtgt
     5101 cgcggccccg acatcccccg gaccacggcc tgtgagcgcg cgcagaaagg atttgcgcga
     5161 aacagacaga agcaccggca aatcgaagcg cagccgcaat tcatcgaacc gcgccagcac
     5221 cgagagcgag gtttcgggag cagcccccag aaaaaacccc atgccgggat caaggacaag
     5281 gcggttgcgt ttgataccgg cacccgtcag cgccgcgatg cgcgcgtcaa agaacgccgc
     5341 aatgtgatcc atgatgtcgc cagcgggtgc ctcgcgccga tctgcctgcc cgtcttgcac
     5401 cgaatgcata acgacgagtt tggcagatga tttcgccaat tgcggataga acgcagcgtc
     5461 tggaaaaccg cgaatatcat tgagataggc cacaccacgc gacaaggcat aggcttgcgt
     5521 cgcgggttga taactgtcga gcgagacggg aatgccatct gccttgagcg cgtccagcac
     5581 cggcgcgata cgcgcgattt ctgtgtcgga cgaaacaggc gcggcgtcgg gattgctgga
     5641 tgccggaccg aggtcgatca catctgcccc ctcggccatc agcttacgcg cctgcgcaat
     5701 ggctgcgtct ggcgccagat accggcctcc atcggagaaa ctgtccgagg ttatgttgac
     5761 gatgccgaaa atgatgagcg atttattcat gggggcttct ataataataa taatcgagca
     5821 tgagtctcat acggatgctc gggtcgaaag ggaatcccca ggcgagtaac ctgtttgcgg
     5881 tgatccgttt catgatgatg tatctgtagc attttggaaa taaatatatc atctctcaat
     5941 aagtagatat atttatcttt tttgcttctt tggtgctgca agtcaccaat acgagggaaa
     6001 cctgttacgg agcggtttaa ccgtaatcaa cagtgactgg tgtcatgttc ggaagattaa
     6061 ttgatagtaa tctacaaagg atcttcttga gatccttttc aatgaatcgt aatctcttgc
     6121 tctgtaaacg aaaaaaccgc ctggggaggc ggtttgttcg aaggttaagt cagttgggga
     6181 actgcttaac ccggtaacag
//
