LOCUS       CP056657                4401 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00204 plasmid pRHBSTW-00204_3,
            complete sequence.
ACCESSION   CP056657
VERSION     CP056657.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148538
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4401)
  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 4401)
  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                     :: WTP3 T1-00204
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 111.15921851906x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 00:19:50
            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)                     :: 4,735
            CDSs (total)                      :: 4,617
            Genes (coding)                    :: 4,439
            CDSs (with protein)               :: 4,439
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 63 of 178
            Pseudo Genes (incomplete)         :: 91 of 178
            Pseudo Genes (internal stop)      :: 42 of 178
            Pseudo Genes (multiple problems)  :: 17 of 178
            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..4401
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00204"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00204_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3989..4401,1..358)
                     /locus_tag="HV121_23585"
                     /pseudo=""
     CDS             join(3989..4401,1..358)
                     /locus_tag="HV121_23585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586611.1"
                     /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="replication initiation protein"
                     /name="replication initiation protein"
     gene            418..672
                     /locus_tag="HV121_23590"
     CDS             418..672
                     /locus_tag="HV121_23590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001722510.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication protein"
                     /protein_id="QLU12357.1"
                     /translation="MIINGKYVKASELAKMAGVSRKTICKYYAQDREEYEQEAKARRFK
                     AYTLKQNGLKLAEIAEVLNCSYHAAAGLIKRYKQQDLTA"
                     /name="plasmid replication protein"
     gene            complement(740..2137)
                     /locus_tag="HV121_23595"
     CDS             complement(740..2137)
                     /locus_tag="HV121_23595"
                     /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="QLU12358.1"
                     /translation="MIHKIIGGKTKLNQRNIKNSISYLLREKKPAEQDLIRVLSGSKEQ
                     MLNFNSLIASKDLKTPYVAGVLSFEEENIPEAEKFKIMNDFEAMAFSGVPEEFRPPVLW
                     VEHRDKGRLELNYLTFNSLTTGRSFPVYYDKKDRRLFNDFTEVINYEGGYSSPFDDFTN
                     TQKIRMAEPPGKTLPAEKKALVEGLNNRLCSLILERKITNKADLITYLQEKEGFKINRI
                     AKNTVSIITDLDDTPIRLKGDIYQDGRDFGDYFKEKQAKPERTQAEISEKLSNHKPSYQ
                     KGLECRTERNRRVYIDPIIRRQQKEEELNKLTIKEEIKPEADTVAVTIPEVNNYDNKRE
                     LAESPATEIFRTIERIRDQQSKINTEQQFINKNTERSRSRIVELGNNTKGNRGRLGFFR
                     DYFDRFSCFINEKLRSVIEFAAEAERKLEEKTEQKQEVRVKKVKVKRRPQLGGRYRKHK
                     EDDELSN"
                     /name="hypothetical protein"
     gene            complement(2134..2535)
                     /gene="mobC"
                     /locus_tag="HV121_23600"
     CDS             complement(2134..2535)
                     /gene="mobC"
                     /locus_tag="HV121_23600"
                     /inference="COORDINATES: protein motif:HMM:NF017524.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="QLU12359.1"
                     /translation="MREKRKIKRIEPELSPVSKNYKAKYKRKNMVSLCLNDDEYLKIEK
                     ITSALNVPRATASREILISNADDILSKIKRNDNKVLVLELNKIGNNLNQITKKINSNLE
                     LCLSGEGENFALAVDRLNETFNKILEAIK"
                     /name="mobC"
     gene            complement(2860..3378)
                     /locus_tag="HV121_23605"
     CDS             complement(2860..3378)
                     /locus_tag="HV121_23605"
                     /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="QLU12360.1"
                     /translation="MSDIEDLNPEHMFDHLKNIFNEKAEDKEEEEKLFTDKDLLRLFED
                     KIWEDLQKIKRDCNSKNLQAYCSAALKNYKRNLISLYILKIKEVEDLKLTTRSADMFFI
                     NYLGRSVGEKYLCENFGRDFKNGDKIILTDKYKSELNLIILKYKSECEASLCFIISLYR
                     RFKNYIIYA"
                     /name="hypothetical protein"
ORIGIN
        1 ctggtctccc tattggtcgg gtgctgattt gtacgaattg gattttttag ctgattgtgt
       61 agaccttaca gtgcctaaac aggccacaaa gtccgaaaat tacgggcttg gtagaaatgt
      121 taacttgttc gaggacttac gacactttgc ctataaacac gttttaaatt tcaaaaagtc
      181 ggcaaatttt gagcagtttt taaatgaagt agaaaggcag ggcattaatt taaatgctgt
      241 ctgtaatgta ggaaatttat tgccattcag tgaagtaaaa gcgactgtta aaagcatatg
      301 tcgctggact tggaaaaatt ttgatagtgc tacattttcg gaaatacaat cagcaagagc
      361 aaaaaagaaa aacaaaaaag cagatataga caatgtttta aaaaatatgg gggttttatg
      421 atcattaatg gtaaatatgt aaaagccagc gaattggcaa aaatggcagg tgttagtcgt
      481 aaaacaatat gtaaatatta cgcccaagat cgtgaagaat atgagcaaga agcaaaagcc
      541 agaagattta aagcatacac attaaaacag aatggcttaa aactcgctga aatagccgag
      601 gttttgaatt gttcgtatca cgcggcggcg ggactaatta agcgatataa acagcaagat
      661 ttaaccgctt aattagctat aagggggcta tataagcgat tatttagctc cttccttttg
      721 ggttgtttct tgatagtatt taattagaaa gctcatcgtc ctctttatgc tttctatatc
      781 ttcctccaag ctggggtctt cttttaactt taactttttt aactctaact tcttgttttt
      841 gttcggtttt ttcttcgagt tttctttcgg cttcggcagc aaattcgata actgatcgca
      901 atttttcatt aatgaagcaa ctaaatcgat caaagtagtc tctaaaaaat ccaagtcttc
      961 ctctgtttcc ttttgtattg tttccaagtt caacaattcg agatcttgat ctttcagtgt
     1021 ttttattaat aaattgttgt tctgtattaa tttttgattg ttgatctcta attctttcaa
     1081 ttgttctaaa aatttctgtt gctgggcttt ctgcaagttc tcttttattg tcataattat
     1141 ttacctctgg aatagtaacg gccacagtgt cggcctctgg tttaatttct tcttttattg
     1201 ttaatttgtt taattcttct tctttttgtt gcctgcgaat aattggatca atgtaaaccc
     1261 gtctatttcg ctctgtacgg cattctaagc ccttctgata gctcggctta tgattgctta
     1321 acttctcaga gatctcggct tgtgttcgct ctggtttagc ctgtttttct ttgaagtaat
     1381 cgccaaaatc acgaccatct tgataaatgt cgcccttaag tctgatcggt gtgtcatcaa
     1441 gatcggttat gattgaaacc gtgtttttag ctatcctatt gattttaaag ccttcttttt
     1501 cttgcaggta ggttataagg tcggctttat tggtgatttt tcgctctaat ataagactac
     1561 ataagcgatt atttagcccc tctacaagtg cctttttttc tgctggcagg gtttttccgg
     1621 gcggttctgc cattctgatc ttttgtgtgt ttgtgaagtc gtcgaacggg ctgctataac
     1681 caccttcata atttatcacc tctgtgaaat cattaaatag gcggcgatct tttttgtcat
     1741 agtaaacagg aaagctcctg cctgtggtga ggctgttaaa tgttaaataa ttaagctcca
     1801 atcttccctt gtctctgtgt tcaacccaaa gcacaggggg gcgaaattct tctggaactc
     1861 cagaaaatgc cattgcctca aaatcattca ttattttgaa tttttcggcc tctggtatgt
     1921 tttcttcttc aaatgacaaa acccccgcaa catatggagt ttttaaatct tttgaggcta
     1981 tcaaactatt aaaatttagc atctgctctt ttgaacctga taaaacccta atcagatctt
     2041 gctctgctgg ttttttttct ctcaacaaat aagatataga atttttaata tttctttgat
     2101 ttagttttgt tttgcctccg attattttat ggatcatttt atagcctcca aaattttgtt
     2161 aaatgtttca tttaaacgat caacagcaag agcgaaattt tccccctcgc ctgataaaca
     2221 caattcaaga ttagaattta ttttttttgt gatttggttt aaattgtttc cgattttgtt
     2281 taattccaac actaatactt tgttgtcgtt tcttttgatt ttagacaaaa tatcatcagc
     2341 atttgatatt aaaatttctc tcgatgctgt ggcacgagga acatttaaag cagatgttat
     2401 tttttcaatt tttaaatatt catcatcatt taaacacaaa ctgaccatat tttttctttt
     2461 gtattttgct ttatagtttt ttgagacagg cgaaagctct ggctctattc ttttgatttt
     2521 tcttttttct ctcacaaaca cactccgaat tatctttttt cttttgattt tgacctggct
     2581 tttggtgggg attgaagggg aggcgaagcc acccctcacc agcgagcaat ccgaaggatt
     2641 gattgtgctg gctctctaca tttaaagcct tacaatttaa ataatatata aaaaaaataa
     2701 gtcaagtacg gttttaatta agcgattaaa tagcaataag caataaaaga ttaattaatc
     2761 gattaattag caataataca aaaagcaata ataaataaaa aaaagcctta catatcaata
     2821 gcttatatag attttgtttt aaggctaatt aggcgattat taagcataaa taatataatt
     2881 tttaaacctg cgatatagtg aaataataaa gcataaactt gcttcacact cggatttata
     2941 ttttaaaata attaaattta attcgctttt atatttatca gtcaagataa ttttatcgcc
     3001 gtttttaaaa tctcgtccaa aattctcgca taaatatttt tccccgacag atctgccaag
     3061 ataattaata aaaaacatat cggctgatct ggttgttaat tttaagtctt caacctcttt
     3121 aatctttaaa atatataaac taattaaatt acgtttataa ttttttaaag cagcagagca
     3181 ataggcttgt aaattttttg agttacaatc gcgctttatt ttttgtaaat cttcccatat
     3241 tttatcttca aataatctta acaagtcttt atctgtgaaa agtttttctt cttcttcttt
     3301 atcttctgct ttttcattaa atatgttttt taaatgatca aacatatgct cagggtttaa
     3361 atcttcaata tcactcatag gtgccacctt ttatttatag ttatagttaa ttaatcgctt
     3421 atatagtcta tctaatacat aaaaaaaata agtcaaattt atttttaatt aaagtcaaaa
     3481 gaaaaaacgg aaaggggttt tattttccgg gatgcggaac tgatcggggt tttttgatgg
     3541 caatcgtgaa cgggtaaaaa ttttaatttt tgcctgttcg ggattaatag gtttttgaaa
     3601 atgacggcgg cgaccgattt tggtttactc aattaaatta aaataataat aaagtattac
     3661 tatattaatt attaaataat aaaggttttc ttggtttaac tcacttcgtg ccatagtgaa
     3721 aacataaaaa aggcttgctt gcctggcagg gccaaacccc ttaaaaaggg gctgttatct
     3781 gatatggcaa agtgacagtt gacaaagcaa aaaaaggctt gcttgcctgg cagggccaaa
     3841 ccccttaaaa aggggctgtt atctgatatg gcaaagtgac agttgacaaa gtaaaaaaat
     3901 gagttaaaac ataagaaaag acaaaccccc catatgctcg gtcgccaaac ttcacatatg
     3961 gagggttaga taaaaaggac ttctttatat gtatgaagat aatcgacaaa attttataag
     4021 tcaaatgccc tacaagccct attgtagtaa cgatctgacc agtggcctaa ctatcagaaa
     4081 gagagaaaaa gcccttgaaa tgctttacat acaagcgaac cagccaacga tccaaacgtg
     4141 tctcctgttc gacatagaca aagagaacag cttttacaca ttcgaagaag ctggcttgcc
     4201 tgttcctcaa ttcattacta aaaatccaag caatggaaga tgtcactacg gctacatttt
     4261 gaaagcaggc gtatgtaaga cacaacaggc aagattaaag ccgttaaagt atgcggcagc
     4321 tgttgaaaac ggcatggcta atgctttggg ttctgatcgt gcatatgttg gtttggtgac
     4381 aaaaaacccg cttaattcgc a
//
