LOCUS       CP056659                4161 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00204 plasmid pRHBSTW-00204_5,
            complete sequence.
ACCESSION   CP056659
VERSION     CP056659.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148538
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4161)
  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 4161)
  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..4161
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00204"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00204_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(477..1670)
                     /locus_tag="HV121_23630"
     CDS             complement(477..1670)
                     /locus_tag="HV121_23630"
                     /inference="COORDINATES: protein motif:HMM:NF015354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QLU12365.1"
                     /translation="MATFHISFKKLRRSEGKSSVYLSAYQNREKTKDNRTGATWDYSKK
                     EGFFGSAILSPAGTPAELVKDSGTLWNAVEAGEKRKDAELCRYLDIAIPKELDDGQKKQ
                     IVLDYCQENFVDYGMIADIAFHDLDSHNPHAHVMLTLRTVSPNGFGNKQREWNNRENIE
                     AWRVNWEIIANDRLKKYGHKSRIDSRSLKDQKEEAERKAVFAKTPKEKAKWISKTIELD
                     RTPMTRIHRHQWRKGQKLRAMEQKEKALLLKIANVTYLQQTKPPQPEETMKIEKKPLAR
                     SIIDNLKALYKKTQHIFKSKPNLNKKKKEEKEDPQNFVSSYVINEFGEHILKTELETKP
                     KTGTGTGTGGNNGGGKMGSGSGMSPMNQPQPKIEEPEPEPMPEFEDQQPKRKKKFGM"
                     /name="MobA/MobL family protein"
     gene            1943..2461
                     /locus_tag="HV121_23635"
     CDS             1943..2461
                     /locus_tag="HV121_23635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000587677.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLU12366.1"
                     /translation="MIIVKKTLAIYLDLLRSIQKKRDQLQRLSVLNVVIHSLSYSVEVF
                     NMEYRGLDFEEQEFHDCLNILHKEIVSFLNENNMAMDFFQYPVEDICRIIFRDKIDLRT
                     AVILDFGITTYDLSPLADHDPFVWRLLEWPLYDYENFQFVIVQKLASYELDKLNEIIQV
                     EDNKDKRRL"
                     /name="hypothetical protein"
     gene            2463..2732
                     /locus_tag="HV121_23640"
     CDS             2463..2732
                     /locus_tag="HV121_23640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549726.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="QLU12367.1"
                     /translation="MSKSTAQQIADLQNKLQALRTKKARQDRREETRQKIILGAEVAKV
                     LNIKPEEINKALVLGLLSKINELDEEEKRDFTRIGMDILQQWKS"
                     /name="conjugal transfer protein TraD"
     gene            complement(2976..3245)
                     /locus_tag="HV121_23645"
     CDS             complement(2976..3245)
                     /locus_tag="HV121_23645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549724.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="response regulator transcription factor"
                     /protein_id="QLU12368.1"
                     /translation="MRRSTIRKGLTQKEMAERFNISVKTVKKYTAEPREQYEQTAADRR
                     RQAYELRSQGLKWQQVADKMGCSYHGAVALYRRYVALDMPKNSL"
                     /name="response regulator transcription factor"
     gene            complement(3242..4099)
                     /locus_tag="HV121_23650"
     CDS             complement(3242..4099)
                     /locus_tag="HV121_23650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586611.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QLU12369.1"
                     /translation="MIIQEEHNIDFFKNQMPNKPYCTNNLDMGLSIRNKAKALEMLYLQ
                     ANQPAIQTCLLFDLDKKNSFYTFEQVGLPIPHFITKTPKTGRCHYGYMLKAGVCKTQQA
                     RLKPLKYAAAVEMAMAKKLKADLGFAGLITKNPLNDHWSPFWSGADLYDLDYLADFVDL
                     EKPQIQKKKSEAYGLGRNVNLFEDLRQYAYRTVLNFKKISTFEKFENELLLKAQGLNTF
                     CNPQNPLQYKELKATARSIARWTWKNFDSHTFSLIQSSRGAKNKNKPKKSNVKEMLGFI
                     GGEK"
                     /name="replication initiation protein"
     Typing          complement(661..1670)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.11"
                     /coverage="85.0"
                     /evalue="0.0"
ORIGIN
        1 ggggtggggt ttttattttt atagattttt caatcctgta ccagttctaa ccgatcttaa
       61 aaatttgtca agtggggagc ttaaccatat cagataacag cccaacgaag ttggggcagt
      121 tctttacata cggcagcaaa gcattactat cagatctatg gtgcgaagca ttaccgaaga
      181 tagaaaaaca ataaaaaaag aaaaaagagt attgttcgaa gaaaaattgg cgattcgatt
      241 tttttaggtg aatatatgaa aaaaaagaaa gtgcagaaaa aacggaaaag aaataagcat
      301 agtaaatttt ttaaaatgct tatgaagtca gttaatgaag ctgtggcaat acataaaggg
      361 gaaatagaac cggcgaggat cacaactcta agaatgtagt atattatagt atagtattaa
      421 ataatattaa gttgtattaa gtgatactac tatatgggca tatataccac tatatactac
      481 attccaaatt tcttcttcct cttaggttgc tgatcttcaa attccggcat tggttccggc
      541 tcaggctctt caatttttgg ttgtggttgg ttcataggag acattccaga gcctgaaccc
      601 atttttccgc ctccattatt tccaccggtt ccggttcctg tgcctgtttt aggttttgtt
      661 tctaactctg tttttaatat atgttcgcca aattcattta ttacataact actaacgaaa
      721 ttttgaggat cttctttttc ttcttttttc tttttattta aattaggttt tgatttaaat
      781 atatgctggg tctttttgta taatgccttt aaattatcaa tgattgacct tgcaagaggc
      841 tttttctcta ttttcatagt ttcctctggc tgaggtggtt tggtttgctg caagtaggtt
      901 acattagcta tttttaataa taatgctttt tctttttgct ccatagctct taatttttga
      961 ccttttcgcc attggtgcct gtgtatcctg gtcattggcg ttctgtccag ttcaatggtt
     1021 tttgaaatcc acttggcttt ctctttcgga gttttagcaa aaacagcctt tctttctgcc
     1081 tcttcttttt ggtcttttaa tgaacgggag tcaatacgag atttatgacc atattttttt
     1141 aatcggtcat ttgctattat ttcccagtta actcgccagg cttcaatgtt ttctctatta
     1201 ttccattctc tttgtttgtt cccaaatcca tttgggctaa cagttcttaa agttagcatt
     1261 acatgagcat gagggttatg actatcaaga tcatgaaatg ctatgtctgc aatcattcca
     1321 taatccacga aattttcttg gcagtaatcg aggacgatct gcttcttctg gccgtcgtcc
     1381 agctccttgg gaatggctat gtccagataa cggcatagtt cggcatcctt tcgcttctcg
     1441 ccagcctcta cggcattcca gagggtgcct gagtccttca caagttcggc aggtgtgccg
     1501 gcaggggaga ggatagcaga gccgaaaaat ccctcttttt ttgaataatc ccaggttgcc
     1561 ccggttcgat tatcttttgt cttttctcgg ttttgatatg cagataaata aaccgaagat
     1621 ttaccttctg atcttcgtaa ttttttaaag ctgatatgaa atgtcgccat agtctacccc
     1681 ttactttttt tgtcttttga attttggttt ttagccccgc agggcccata cgtcgcttgc
     1741 gacgtgtaag tgggcattac taatattatt ttttcggttg cacctcaaaa taataaagta
     1801 ataaacccag gcttcgccca atataaatat attaaaatat atttgactaa agtaaataat
     1861 ggaggtaatg aataataaaa taaataatta ggaggttata tggaaaaaga aactctcggt
     1921 cctgatatac aagtcaattg gtgtgatcat tgtaaaaaaa acactcgcca tatatttaga
     1981 tttactgagg agtattcaaa agaagaggga ccaattacag aggttgagtg tactaaatgt
     2041 ggtaatacat tcactatctt atagtgtgga ggtttttaat atggaatata gaggattaga
     2101 ttttgaagaa caagaatttc acgactgttt aaatatatta cacaaagaga tagtgtcttt
     2161 tttaaatgaa aataatatgg ctatggattt ttttcaatat ccagttgagg atatatgcag
     2221 aataattttt cgagataaaa tagatctgag aactgctgtt attttagatt ttggaattac
     2281 aacctatgat ttaagccctt tggcagatca cgatcctttt gtttggcgtt tgcttgaatg
     2341 gccattatat gattatgaga atttccagtt tgtgattgtt caaaaactgg cttcttatga
     2401 attagataaa ttaaatgaaa taatccaagt agaagataat aaagataaaa ggaggttgta
     2461 atatgagcaa atcaacagca cagcagatcg cagatctaca aaataaacta caagcattaa
     2521 gaacaaaaaa agcaaggcag gacagaaggg aagaaacaag acaaaaaata atcctgggtg
     2581 cagaagtggc taaggtttta aatattaaac cagaagaaat aaataaagct cttgtattag
     2641 gcttgttaag taaaatcaat gaattagacg aagaagagaa aagagatttt acacggatcg
     2701 gaatggatat attgcagcaa tggaaatcgt aaaccgtgaa cagtgaagaa ccagccgcct
     2761 ttggctggtt tttcattgtg aagggttgcc agccgtaggc tggaggtttt aaggttgcca
     2821 gagggcctct ggtggctggg tgggtttgtt gatttgttgg taccagagtg tccctcacct
     2881 atccagacac aagcccggat acggggaaag gggaaaaaat ccccccaggg gtggagggtt
     2941 tggttaggtt agggggaaaa actgcttaga agtcgttaca ggctgttttt aggcatatct
     3001 aaggcaacat aacggcgata cagggcaacg gctccgtgat acgaacagcc cattttgtcg
     3061 gctacctgtt gccatttcag cccctggctt cgtagttcgt aagcctgacg acgacgatca
     3121 gccgctgttt gttcgtattg ttcacgaggt tcggctgtat atttttttac cgttttaaca
     3181 gatatattaa atctttcagc catttctttt tgagttaaac cttttcttat tgtgcttctt
     3241 ctcatttttc acctcctata aaaccaagca tttctttaac attactcttc ttgggtttgt
     3301 ttttattttt cgcacctctt gaagattgta ttagtgaaaa tgtatggcta tcaaaatttt
     3361 tccaagtcca acgggctatg cttcttgctg ttgcttttaa ctctttgtat tgtaacgggt
     3421 tttgtgggtt gcaaaaagta tttaaaccct gtgcttttaa tagtagttcg ttttcgaatt
     3481 tctcgaaagt agatattttt ttgaaattta aaaccgttct gtaagcatat tggcgtagat
     3541 cttcaaacaa attaacattg cgacctaaac cataagcctc gctttttttc ttttgtattt
     3601 gaggcttttc taagtccaca aaatcagcta aataatccag gtcataaagg tcagcacctg
     3661 accagaacgg cgaccagtga tcattgagtg ggttttttgt aatcaatcca gcaaacccca
     3721 gatctgcttt gagttttttc gccatagcca tttcaacggc tgcggcatac ttcaacggct
     3781 tcaaccttgc ttgttgtgtc ttacaaaccc cggctttcag catatagccg tagtgacaac
     3841 gacctgtctt tggtgttttt gtaataaagt gaggtatggg taagcccacc tgctcaaatg
     3901 tatagaatga atttttctta tctaaatcaa agagtaagca agtttgaatg gctggctgat
     3961 ttgcctgtaa atacagcatt tcaagggctt ttgccttgtt ccttatgctt aatcccatat
     4021 cgaggttatt tgtgcaataa ggtttgttag gcatttgatt tttaaaaaaa tcgatgttat
     4081 gttcttcttg tattatcatt tttattcagt ccttttttat ctggccctgc tcctctgttc
     4141 tgtcgccaaa acaatcacag a
//
