LOCUS       CP056449                6200 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00503 plasmid pRHBSTW-00503_4,
            complete sequence.
ACCESSION   CP056449
VERSION     CP056449.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148639
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6200)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 6200)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: WTP1 T2-00503
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 131.583624931624x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 21:51:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,949
            CDSs (total)                      :: 4,821
            Genes (coding)                    :: 4,585
            CDSs (with protein)               :: 4,585
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 236
            CDSs (without protein)            :: 236
            Pseudo Genes (ambiguous residues) :: 0 of 236
            Pseudo Genes (frameshifted)       :: 94 of 236
            Pseudo Genes (incomplete)         :: 141 of 236
            Pseudo Genes (internal stop)      :: 44 of 236
            Pseudo Genes (multiple problems)  :: 36 of 236
            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..6200
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00503"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00503_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(6167..6200,1..116)
                     /locus_tag="HV222_24700"
     CDS             join(6167..6200,1..116)
                     /locus_tag="HV222_24700"
                     /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="QLV52880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(861..1301)
                     /locus_tag="HV222_24705"
     CDS             complement(861..1301)
                     /locus_tag="HV222_24705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="QLV52881.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="entry exclusion protein 1"
     gene            1519..1908
                     /locus_tag="HV222_24710"
     CDS             1519..1908
                     /locus_tag="HV222_24710"
                     /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="QLV52882.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            1952..2356
                     /locus_tag="HV222_24715"
                     /pseudo=""
     CDS             1952..2356
                     /locus_tag="HV222_24715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /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="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(2463..3299)
                     /locus_tag="HV222_24720"
     CDS             complement(2463..3299)
                     /locus_tag="HV222_24720"
                     /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="QLV52883.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(3299..4102)
                     /gene="aph(3'')-Ib"
                     /locus_tag="HV222_24725"
     ARG             complement(3303..4102)
                     /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(4163..4978)
                     /gene="sul2"
                     /locus_tag="HV222_24730"
     ARG             complement(4167..4978)
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             complement(2467..3299)
                     /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          5959..6132
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          complement(5430..6035)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctgatacgca gcttcccggc gaatatgacc tttttgattt aatggcgcag gttactgaag
       61 agaacctgca tgcccctgtg gattttgggt cgcctgtcgg ccgggaagcg ttatagcttt
      121 ttcgcttgcc cgcgtacgtg gtaatactcc ggtattacct tttatttctt tattttcatg
      181 taattacagt ggatttttaa tacccgggta ttactcgtga aaacgaaata ttcctttttt
      241 ttcttttaat tcatgcagtt gcgatgaaaa tcgcggctgc gttaggtgta tgaccatttt
      301 gaggttgaaa aataatcaac catggcgggt gatttacgca ggttaagggg agatcgtgac
      361 aaaaaaagcg ttcctcactg tatcgttcat gcctgcatga acgggttatt cttcctgact
      421 acagaattac atcgctcctt cagttcatac atcactttta catcacttat acatcacttt
      481 tacatcattc cttcagctca tacgtcactt tcatcctctg tgccatttgt acatcacccc
      541 cttcctgaac gtgctgacag cgggttttcc ggctgcgccg gcaacgcttc acggccacgc
      601 aataaattgc gtccccgttc accgttttcg gatgggaaga acgccggaaa caggacttac
      661 cccggctgaa tggtgtgaat ttccgcgcta tgcacttgtg cgcatactca tgcatgccgt
      721 aaaaacagag cctgcgcgtt tctggcgggt tttcgggtgg tttgttgcct gttttaccgg
      781 tttcccgtca gaaacgccct gagggcctct caggcggtgc tgataacaga tgttatggta
      841 aatcagagtc acctgcactg ttactctgaa ccggagcgaa acagccgcga ccagaatccc
      901 cgcttttttt cctgtgccag cgcgtcagcc agacggctaa tttcggcctg tagttgttcc
      961 ctctcctcat ttcgcaggcg gttttctgct tcccgcgcca tcttgtcttc aagcattagg
     1021 gtaacagtct gctgcagagc gtccagtttc tgctgaatga cgtctagctg agcattttcc
     1081 gcctggctaa cgacagattt ggagtgtccc tccttgtgcc tttttggtgt ctcagaagtg
     1141 cgcagctcgc cataggcccg aatcagttca ctggtctcga actcccggcg atcatttttt
     1201 cctgtgcgat agctgacaag gcctttagcc atgtcacgat ataattgcga gcgcgacttt
     1261 cctgttaatt tcagtgtctc ttgaactgtg tgccatgcca taaaagtgac agtgtctcct
     1321 gtgtgtaccg tattgtaaca gcagaacata ttactgtttt aacacaaaag gtctgaggct
     1381 gcccgtgagg cgtgaaaaat acacaaaaaa cctgttgacg gtgtggtttt gacgggcgta
     1441 gtatttcgaa tactgtatat aaacacattg ttataaatac agtttttgct gtttttaaaa
     1501 gtcaaagagg ataattttat gagtacagag ttaaatagcg gtactgtcgg tggttttggt
     1561 cacatgggac caaatgaccc ctacaatgat ggtcatagcg gctctggaag ttcgggaggt
     1621 agttttaacg gtggtggtaa tggtggccat gataatagta gtggttcatc ttatactgca
     1681 tcctttggtc tcatcactgg ccgacacccg ataactgtcc caggtacgaa gaatattaat
     1741 tctgtcgatc tttctgctgt cattaataac attatacatc atgaaggtgc acgcaataac
     1801 atgtacctag atactgcgaa caatgtaaga gtgggagtga cgggcactgg ctggcaatgt
     1861 ctagcaacgg caggcatttc ggctgagggt aaaagaactt tccgctaagc gatagactgt
     1921 atgtaaacac agtattgcaa ggacgcggaa catgcctcat gtggcggcca ggacggccag
     1981 ccgggatcgg gatactggtc gttaccagag ccaccgaccc gagcaaaccc ttctctatca
     2041 gatcgttgac gagtattacc cggcattcgc tgcgcttatg gcagagcagg gaaaggaatt
     2101 gccgggctat gtgcaacggg aatttgaaga atttctccaa tgcgggcggc tggagcatgg
     2161 ctttctacgg gttcgctgcg agtcttgcca cgccgagcac ctggtcgctt tcagctgtaa
     2221 gcgtcgcggt ttctgcccga gctgtggggc gcggcggatg gccgaaagtg ccgccttgct
     2281 ggttgatgaa gtactgcctg aacaacccat gcgtcagtgg gtgttgagct tcccgtttca
     2341 gctgcgtttc ctgtttgggg tcgtttgcgg gaaggggcgg aatcctacgc taaggctttg
     2401 gccagcgata ttctccggtg agattgatgt gttcccaggg gataggagaa gtcgcttgat
     2461 atctagtatg acgtctgtcg cacctgcttg atcgcggccg cgatagctag atcgcgttgc
     2521 tcctcttctc catccgcgtt ccaagctgcg gaaaggcacc cataagcgta cgcctggtcg
     2581 agcaggcgac gcggatcgac gtccagcgca cgagagaatg cgtccgccat ctgtgcaatg
     2641 cgtctaggat cgagacaaag gtcgtctctg tcagccggat cgtagaacat attggcggcg
     2701 ccaaagccca cttcaccgac cagaccgacg ggatctatca ccagccagcc gcgactggag
     2761 aacatgatgt tttcatgatg cagatcgcca tgtagcccac gcagttccga ggcattgctc
     2821 atcatttgat cggctataat cgccgcgtgg acgtagtcag tttgacaacc tgcgttttga
     2881 tcatcgcgcg cccgctgaaa caaagctgca aagcgatccc ggatcgggag aagggcagaa
     2941 ggcaggggtt cctcagatgc ggcatacagc ttcgccatta gttccgctgc aatttcggtc
     3001 gcctggtagt cgccgtgctc ggcaacgatg tgagagagca ttcgctcccc ggcatattcg
     3061 agcaacatca gattgttctc acgaccgagc aaccggactg ctcccctccc attgcgccat
     3121 accagatagt cggccccgcg cagttcatca gcaatgtctt ctataggttt caatcccttg
     3181 acgattgcag gagtcccgtc tggcaatgaa actttccaaa cgaggctgga aaaggtgtcc
     3241 gcaatgagaa caggttgcga aacgtgccaa tgagcaggaa aaacaggcgg catgaacatc
     3301 aaccccaagt cagagggtcc aatcgcagat agaaggcaag gcgttcgcgg tcgggggctt
     3361 cgatccccaa tacattgaat aggacagcga aggcgcgctc tgcttcatct ggcgctgccc
     3421 agttctcttc ggcgttagca atcatgagtg ccaaatcggc atagcgatct gctgttccga
     3481 gccgcccaag gtcgatcaga cccgtgcatt gaagagtttt agggtccacc atgaagttcg
     3541 gcatgcaggg atcaccatgg caaacaacca tatcggtgcg ctcttggtcg agccgcaccg
     3601 gtagctctcg ttcgacacga gccaaaagat cgagctgcgg cgtactcttg tcctcgtccg
     3661 gtaagaagtc gggattgacg gcattgcggg acaccacatc aacggcgcgt ccgaacattc
     3721 gcgacagcct gcgctcaaac ggacattgat caaccgatag gctgtgaaca gcgccaagtt
     3781 gctgccccat tgacggccac gctttgagca aatccgctcc agacagatca gccgccggta
     3841 ctcccggaat tgccgttatc accaagcatg caccctcctg ttcctcctgc cagttgatga
     3901 cctcggggca agccacacct cgacctttga gccaaatgag gcggtcacgc tctccagcga
     3961 gctcaccgcg gcgggaagca ggtgcgattt tcgcgaaggc atgcccgtca ccacgtcgaa
     4021 aaacaaaatc accagattct ccgcctctga caggcaacca gtcagaatgc gattcaccaa
     4081 aaaaaatatt agttcgattc aatggaggtt ccttcagttt tctgatgaag cgcgaatata
     4141 gagaaatatc ccgaatgtgc agttaacgaa ttcttgcggt ttctttcagc gccgccaata
     4201 ccgccagccc gtcgcgcaag gggcgcggct cgtgtgtgcg gatgaagtca gctccacctg
     4261 cggcggcggc aagctctgca gcgagtgtcg cggccccgac atcccccgga ccacggcctg
     4321 tgagcgcgcg cagaaaggat ttgcgcgaaa cagacagaag caccggcaaa tcgaagcgca
     4381 gccgcaattc atcgaaccgc gccagcaccg agagcgaggt ttcgggagca gcccccagaa
     4441 aaaaccccat gccgggatca aggacaaggc ggttgcgttt gataccggca cccgtcagcg
     4501 ccgcgatgcg cgcgtcaaag aacgccgcaa tgtgatccat gatgtcgcca gcgggtgcct
     4561 cgcgccgatc tgcctgcccg tcttgcaccg aatgcataac gacgagtttg gcagatgatt
     4621 tcgccaattg cggatagaac gcagcgtctg gaaaaccgcg aatatcattg agataggcca
     4681 caccacgcga caaggcatag gcttgcgtcg cgggttgata actgtcgagc gagacgggaa
     4741 tgccatctgc cttgagcgcg tccagcaccg gcgcgatacg cgcgatttct gtgtcggacg
     4801 aaacaggcgc ggcgtcggga ttgctggatg ccggaccgag gtcgatcaca tctgccccct
     4861 cggccatcag cttacgcgcc tgcgcaatgg ctgcgtctgg cgccagatac cggcctccat
     4921 cggagaaact gtccgaggtt atgttgacga tgccgaaaat gatgagcgat ttattcatgg
     4981 gggcttctat aataataata atcgagcatg agtctcatac ggatgctcgg gtcgaaaggg
     5041 aatccccagg cgagtaacct gtttgcggtg atccgtttca tgatgatgta tctgtagcat
     5101 tttggaaata aatatatcat ctctcaataa gtagatatat ttatcttttt tgcttctttg
     5161 gtgctgcaag tcaccaatac gagggaaacc tgttacggag cggtttaacc gtaatcaaca
     5221 gtgactggtg tcatgttcgg aagattaatt gatagtaatc tacaaaggat cttcttgaga
     5281 tccttttcaa tgaatcgtaa tctcttgctc tgtaaacgaa aaaaccgcct ggggaggcgg
     5341 tttgttcgaa ggttaagtca gttggggaac tgcttaaccc ggtaacaggg ttcacgagac
     5401 cgccattacc aaaactgttc tttcagtgta gccgcagtca ggcctctact tcaagacctc
     5461 ttaatctatc ttctcgtgca ctcctgttac taatggctgc tgccagtggc gttttgtcgt
     5521 gtctttccgg gttggactca agttgatagt taccggacaa ggcgcagcgg tcggactgaa
     5581 cggggggttc gtgcatacag tccagcttgg agcgaactgc cttcacggaa ctgagtgtca
     5641 ggcgtggaat gagaaaccgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     5701 gaacaggaga gcgcacgagg gagctaccag ggggaaacgc ctgggatctt tatagtcctg
     5761 tcgggtttcg ccaccactga tttgagcgtc agattttgcg atgcttgtca ggggggcgga
     5821 gcctatggaa aaacggcttc gccgtggcct tatctcttct ttgctaagtg tcttcctggt
     5881 atcttccagg aaatttccgt ccccgtccgt aagccggtac cgctcgccgc agccgaacga
     5941 ccgagcgtag cgagtcagtg agcgaggaag cggaatatct cctgtatcgc atattctgct
     6001 gacgcgccgg tgctgccttt tttctcctgc cacatgaagc acttcactga ttttcgcaat
     6061 cgtggcaaca tagtaagcca gtatacactc cgctagcgct acatgactgg ttcagggctg
     6121 cgccccgaaa cccgctaaca acctctcagc tactggatat caccccatgc catctgaata
     6181 tgatgaacaa ctggattcga
//
