LOCUS       CP056359                4116 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00670 plasmid pRHBSTW-00670_3,
            complete sequence.
ACCESSION   CP056359
VERSION     CP056359.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148677
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4116)
  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 4116)
  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                     :: WTP2 T2-00670
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 90.2574946361378x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 20:06:19
            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)                     :: 4,965
            CDSs (total)                      :: 4,839
            Genes (coding)                    :: 4,683
            CDSs (with protein)               :: 4,683
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 72 of 156
            Pseudo Genes (incomplete)         :: 97 of 156
            Pseudo Genes (internal stop)      :: 37 of 156
            Pseudo Genes (multiple problems)  :: 40 of 156
            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..4116
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00670"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00670_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            474..626
                     /locus_tag="HV260_24790"
     CDS             474..626
                     /locus_tag="HV260_24790"
                     /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="QLW67563.1"
                     /translation="MLAHAVELKKATEPCSSGTAGAFRQRVKARRAEQGRSNQQPEKLY
                     GVLVG"
                     /name="hypothetical protein"
     gene            complement(636..1190)
                     /locus_tag="HV260_24795"
     CDS             complement(636..1190)
                     /locus_tag="HV260_24795"
                     /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="QLW67564.1"
                     /translation="MKAVRHRYKQRYDFAASEVVGAFDELRSLDWSLEIASLSDVEMSK
                     RWIGAVDPNGVARLPPNGGWDWVKLYNGYLKNPSAFVCAIKSEGKLCALIGGGVSDSKV
                     VTKLHYLESAPYDTALSGYALDISVTYVVTVANAMGSEYSAIYEPNSKVREIAINDYGF
                     SEDNLFGTSKDFALYLPMSRI"
                     /name="hypothetical protein"
     gene            complement(1196..1714)
                     /locus_tag="HV260_24800"
     CDS             complement(1196..1714)
                     /locus_tag="HV260_24800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001445155.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLW67565.1"
                     /translation="MSEKAKKVGRRSLSKRRESLIKELWGDELSELNIWNRKEHDGFTT
                     IPRTLNYINRIIDYLAGAGSPVSQTYLSLWCRVFDEGFVEIRDKDALAFESGFSGQRAV
                     TTWLGRMKKLRELGLISTKPGTSGEFHYVIMLNPLYVIKKSYESNGWKRDERYNALFSR
                     MQEVGAEWE"
                     /name="hypothetical protein"
     gene            complement(2687..3055)
                     /locus_tag="HV260_24805"
     CDS             complement(2687..3055)
                     /locus_tag="HV260_24805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880027.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLW67566.1"
                     /translation="MANFNPGPRTAIAAVRDSKNDIETWKKNGIRREEIVTVLNERYGL
                     NISLVAFDKALYRLRKSTDEPSLADVDSVSAAETNFSEASGPENGFFLSENDFMRAEEE
                     SQRMVESFRDSLGRKKGF"
                     /name="hypothetical protein"
     gene            complement(3439..3588)
                     /locus_tag="HV260_24810"
     CDS             complement(3439..3588)
                     /locus_tag="HV260_24810"
                     /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="QLW67567.1"
                     /translation="MPSEYDEQRDATDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          complement(3582..3796)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.52"
                     /coverage="100.0"
                     /evalue="3.460000000000001e-56"
     Typing          2..318
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.075"
                     /coverage="91.0"
                     /evalue="3.14e-85"
     Typing          3760..4116
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.845"
                     /coverage="96.0"
                     /evalue="4.95e-113"
ORIGIN
        1 cgggtaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgactg
       61 ctgcgcctta tccggtaact atcatcttga gtccaacccg gaaagacatg caaaagcgcc
      121 actggcagca gccaacggta agaggatgta caagagatta ctaacgcaga gttcttgaag
      181 tatcagccca actacggcta aactggaagg acgaatttgg tggcagtggt cttgtacacc
      241 ctgttaccac ggttcataaa cttgccggtt taatgaacct tcgaaaaacc accttgccgg
      301 gtggtttttt cgttttcaaa gaagatacgc gtttactctt cgcctcgtca atgaagggtc
      361 gcattaattc tgcgacttgc gcatctcttc tacaatacag tacagttact atgaagttga
      421 cgtatccgtc atctcatatg ctttgtacta actcacgaaa aaacggaaat aatatgttag
      481 ctcacgcggt cgaacttaaa aaagcgacgg aaccatgctc ttctggtaca gccggagcat
      541 ttcgccagcg cgtaaaagca agacgagcag agcaaggccg atcaaaccaa cagccagaaa
      601 aactctacgg cgtactggta ggataaatga gccggttaaa tccggctcat tggtagatac
      661 agagcgaaat ctttacttgt cccaaacaag ttgtcctcgc taaatccata atcatttata
      721 gctatctctc tgactttgct atttggctca tagatggctg agtattcgct tcccatcgca
      781 ttcgcgacag taacaacata cgtaacagaa atatccagtg catatcctga aagagccgtg
      841 tcataagggg ctgattcaag gtaatgcagc ttagttacca ctttactatc agaaaccccg
      901 ccaccaatca gagcgcatag cttgccttct gatttaatgg cacagacgaa tgcgctaggg
      961 ttcttcaaat agccgttata gagcttaacc cagtcccatc caccgttagg tggtaatctt
     1021 gcaacaccgt taggatcaac agccccaatc catctctttg acatttccac gtcacttaaa
     1081 gatgcgattt ctaaactcca atccaaactt ctaagttcat caaacgcccc cactacttct
     1141 gacgcagcaa aatcatatct ctgcttatat cggtgacgaa cagctttcat gtcgttcatt
     1201 cccactctgc ccccacttcc tgcatcctag aaaatagagc gttgtaacgc tcatcccttt
     1261 tccatccatt tgattcatat gactttttaa ttacgtaaag tggattcaac atgattacat
     1321 aatgaaactc gccagaagta ccaggcttcg ttgatatcag tcccagctcc cgtagctttt
     1381 tcattcttcc tagccaagta gtcaccgctc gctgcccact aaaccctgac tcaaatgcca
     1441 gagcatcttt atccctaatt tcgacgaatc cctcgtcaaa aactcgacac cataaactga
     1501 ggtatgtctg tgacacagga gatccagcgc cagcaaggta atcgattatc ctattgatat
     1561 aattcaatgt tcttgggatt gttgtaaatc catcgtgttc tttcctgttc catatattca
     1621 gttcggaaag ctcatccccc caaagctctt ttattagact ttctcttctt tttgatagag
     1681 agcgcctacc tacttttttt gccttctctg acatttatcc cccaaaagtc aattcaacat
     1741 gaaaatatta tcaacaaaaa acctattata ttcaatgagt tatgcgtaat aacacaaaaa
     1801 ccaagcacat cattaaccaa catctcattt gatatgattc tttttttttg tcaacacaaa
     1861 tattgagatg caatattctt tacgtttact gtcttatttt tcaattagtt atgcgctatt
     1921 ttgtactcgc tgttctcaat gtgctctaat gtaatcgttg tgctcgctgt gctgaatggg
     1981 gttcttaggg ggtttaaggg gggaggaagg ggtgccatga atgcgcaatg aaaaagccca
     2041 cataagcggg cttcgtcttt ttaaatgatt cctcgacgtc gtagttcggc ttcaatagca
     2101 tcacaggaat cacgcaaaat cttcgtgttg tagtacctac ccatctttct tcggataata
     2161 tcgtcaagca aggcattgtt atggtctaac gttttgagta ggtatagggt ttctctatcc
     2221 atcttaggat ctccattttt tgttgatgag cttattgctc gccagtattt attccgtctg
     2281 caaattacct actcagaatg gcgtcaaaac tcgagttttc gcttacacct cagaaaccat
     2341 ttaccataac atctcttgcg tgcaccgcct gagaggccct cagggcgttt ctgacgggaa
     2401 accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcag gctctgtttt
     2461 tacggcatgc atgagtatgc gcgcaagtgc atagcgcaga atttcacacc attcagccgg
     2521 ggtaagtcct gtttccgatg ttcttcttat ccgaaaacgg tgaacgggga cgcaatttat
     2581 tgcgtggccg taaggcattg accaagccgt aaggcacggt aggtaattgc aggtatccga
     2641 caatttcgag tagaggatcc actatttcac tacttagaat tcaaaatcag aatcctttct
     2701 tcctgccaag gctatctctg aatgactcaa ccattctttg agattcttct tctgctcgca
     2761 tgaagtcatt ctcggacaga aaaaaaccat tttcaggccc actggcttca gagaaattcg
     2821 tttctgcagc agacactgaa tccacatcag caagagacgg ttcatctgta ctttttctca
     2881 atctgtaaag agccttatca aacgcaacca gtgagatatt caggccgtaa cgttcattca
     2941 gcacagtcac aatctcttcc ctacggatac catttttctt ccaggtttct atatcgttct
     3001 tggaatccct gacagctgca atggctgttc ttggaccagg gttaaaattc gccatatacc
     3061 gcccataatg tcttacattt gtctcataat agtccaaaaa taagagtaaa acgcaaaaaa
     3121 tgtcttacaa ttgtcttatt tttgtccttt ccggttcatg gatacatgaa ccgcctgatg
     3181 tggaacgctt tttatcgatc tcatgcgctg ccaaagatag attcattctt taaaagtcag
     3241 gttacattat cccttaaatg gccatacacc atacgcaacc gcgattttca tcgcaattgc
     3301 atgaattaaa aggtaaaaac tgaatttccc gtttatttat gtaatacgca acgtattaca
     3361 accacctgta atcacatgaa aataaagaaa taagatgtaa taccggcgta ttacacgtac
     3421 gctgaccagc gaaaaaagtt ataacgcttc cctgccgaca ggcgggccaa aatccaccgg
     3481 ggcgtgcagg ttctcttcag taacctgcgc cattaaatca aaaaggtcat attcgccggg
     3541 aagctgcgta tcagtcgcat cccgttgttc atcatattca gatggcatgg ggtgatatcc
     3601 agtagctaag gggttgttag cgggtttcgg ggcaaagccc tgaaccagtc acgtagcgct
     3661 agcggagtgt atacgggctt aaaatgttac aacgcagtaa tgatttacga aagtgcttca
     3721 tgtggtaccg ggaaatgcag caccggtgtg taagtgcgaa atgcagatcc cggtgaaatg
     3781 acgcctcctc gctcactcgg tcgctgcgct cctgccgtga gactgcggcg ggcgttgcca
     3841 gctcacgaat ggctggataa agagacttag cggaaatcag gaagagcgga aaaaggatgc
     3901 ggcgttgccg tttttccata ggctccgccc ccctgacaag catcacaaaa tctgacgctc
     3961 aaatcagtgg cggcgaaacc cgacaggact ataaagatcc caggcgtttc cccctggtag
     4021 ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc ggtgtcactc cgctgttatg
     4081 gccgcggttt ctcattccac gcctgacact cagttc
//
