LOCUS       CP056790                3133 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00180 plasmid pRHBSTW-00180_5,
            complete sequence.
ACCESSION   CP056790
VERSION     CP056790.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148528
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3133)
  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 3133)
  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 T1-00180
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 77.3547982687507x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 00:15:30
            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)                     :: 4,955
            CDSs (total)                      :: 4,830
            Genes (coding)                    :: 4,603
            CDSs (with protein)               :: 4,603
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 227
            CDSs (without protein)            :: 227
            Pseudo Genes (ambiguous residues) :: 0 of 227
            Pseudo Genes (frameshifted)       :: 97 of 227
            Pseudo Genes (incomplete)         :: 119 of 227
            Pseudo Genes (internal stop)      :: 47 of 227
            Pseudo Genes (multiple problems)  :: 31 of 227
            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..3133
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00180"
                     /isolation_source="Freshwater sample from upstream of
                     wastewater treatment plant"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00180_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            850..993
                     /locus_tag="HV111_24740"
     CDS             850..993
                     /locus_tag="HV111_24740"
                     /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="QLY95114.1"
                     /translation="MNTKVLFVKKALKSITCAILSLLPALSRAVTELRSLSAARLKAGK
                     SF"
                     /name="hypothetical protein"
     gene            complement(1018..1770)
                     /locus_tag="HV111_24745"
     CDS             complement(1018..1770)
                     /locus_tag="HV111_24745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001127762.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLY95115.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGVRYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGDMKVKALFDEFH
                     KVLLFRNRLFHHEPIWKKHHCKSHSQAINNMLKEFNFLMNALSIVSNEKKELIEFIGHD
                     RRFYERCTIEYVMGIIGRIKCRELKVAG"
                     /name="hypothetical protein"
     gene            complement(2229..2552)
                     /locus_tag="HV111_24750"
     CDS             complement(2229..2552)
                     /locus_tag="HV111_24750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="QLY95116.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            2837..3031
                     /locus_tag="HV111_24755"
     CDS             2837..3031
                     /locus_tag="HV111_24755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QLY95117.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDSLDADAQAAMCEKLHELA
                     EELQNSIQTRFESESGTGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2562..2799)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.75"
                     /coverage="99.0"
                     /evalue="1e-116"
     Typing          197..646
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.494"
                     /coverage="90.0"
                     /evalue="1.02e-154"
     Typing          complement(2233..2552)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.32e-62"
ORIGIN
        1 gctcggtcgt tcggctgcgg cgagcggtat cagctcactc aaagacggta atgaggttat
       61 ccacagaatc aggggataac gccaaaagaa acatgtgagc aaaaaacaag aacccgaaaa
      121 aggccgcgcc ggtggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaatc
      181 gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc
      241 ctgatggctc cctcgtgcgc tctcctgttc ctgcctttcg gtttaccggt gtcattccgc
      301 tgttatggcc gcgttatctc attccacgcc tgacactcag ttccgggtag gcagttcgct
      361 ccaagctgga ctgtatgcac gaaccccccg ttcagtccga ctactgcgcc ttatccggta
      421 actatcgtct tgagtccaac ccggaaaggc acgacttatc gccattggca gcagccactg
      481 gtaactgatt tagaggagtt agtcttgaag ttacgtgcca gttaaggcta aactggaaga
      541 acaagttttg gtgactgcgc tcctcttaag ccagttaccg aggttcagaa acttgccggt
      601 tgctgaacct tcgaaaaacc accttgccgg gtggtttttt cgtttttaag attacgatgg
      661 gcgcgatatg aactcaagga aatccgcaat taaattataa aagtttgtgg attaatggaa
      721 aaactgatgt gaatcagcta tttatcctta agatttgatg tcagatatgg tataattaac
      781 cattcaaata gatggaataa aaagtcaacg ctgccattag aacggcataa gaaatagagg
      841 attatgaaaa tgaatactaa agttcttttt gtgaaaaaag ccttgaaatc aattacttgc
      901 gcaattcttt cgctcttacc ggctttaagt cgcgcagtaa cagagttacg tagcctttcg
      961 gctgcgcgac ttaaagccgg taagagcttt tgattgtatc acatttttcc ttaaaagtca
     1021 accggctacc ttaagctccc tgcacttaat cctccctata atccccataa catactctat
     1081 cgtgcagcgt tcataaaagc gcctatcgtg cccaataaac tcaataagtt cctttttctc
     1141 gttagagacg atactcaagg cattcattaa aaaattgaac tctttcaaca tattatttat
     1201 ggcttgacta tgcgacttgc agtggtgttt tttccaaata ggctcatggt gaaaaagtcg
     1261 attcctaaac aaaagaactt tatgaaactc gtcaaacaac gctttaacct tcatatcccc
     1321 cccacccaaa ggattcttcg catgaggaaa tgtttttgcc ttgttctctg gagtccagat
     1381 gtagcacggc ctttgcgtat ccctatatgg ggcatctaac atataaaccc aaaagccaaa
     1441 ggttagacgg caaataacat catcatccgt ataccttacg ccacactcat ctagcgcttt
     1501 ttgtttcgca tttaaaacaa gatcctgaga tttctttgtt tgaggtatag agtcgtacca
     1561 agcaggccca tgattagctt tgattgtatt gtttatcgca ttacgcagag caacctcaat
     1621 catctggaca agacaaaaaa aatcgccaga cagatcttgg taggcaacgt atgccccaac
     1681 cttttcttga tcagtagcgc acccaagaaa tgtttcatag aaagataatc ttggtacaga
     1741 aattgagcta attaaacttg ttgtatccat gaaaactcac ttatctcttt actatgaata
     1801 tttttcagac taccattaca acattcgagg agcaggcgaa ctaccgtttt tctgtgtacc
     1861 tctagagcgt aaaatataac aaaaaagccc actacagagt gggctttttt gttatattta
     1921 tctatatgaa acaaccagtt atagttattg tttcataata agaattgaat actcttcaca
     1981 atccacaaca tcagaaaata ctttgctgcc aatttaccat aactcccctt acgcgcaccg
     2041 ctaaaacgcg ctgaacgcga ttctgccgca aacaccgcaa aaagagatgt tttacccagt
     2101 gaaaaccgga aaaatgcgtc aggaccgttt tcagctcact gcatagctat gcatgaaagt
     2161 gaatggcgat cggtttgggg ccttacggcg ttcataccgt ctgttttcga cagtttctct
     2221 ccgggaagct aatctgccat aagcctggat aacagggccc ggtgatactc cgtaatagcg
     2281 atcagcacct ccgcatactc tctgtccccg acacgcttgc cgtcgataaa gagttttttc
     2341 tgtaacgccc ccagtctcat aacttctttc agtacccgat catcagtcag tgagttaact
     2401 ttcttaccga gagctgccgc ccgtaaaaaa ccggaaacgg tcttgccgca ttcagcagcc
     2461 ctttttctga tttcctggtc ttcttctgcc gtcagacgaa cagggcgact gatagcccgc
     2521 ctgcgcgtat tacttccact tcgttttgtc ataaaacatg gctccgtatc tgacatgggg
     2581 tgtcggggcg aagccctgac cagggtaatt gtaatagcgc gcatgtatgc gcggtataac
     2641 aattacacat cctgtcctgt cagcaagttc gaattaccga caaaggcacg gcagtttttt
     2701 ggcagtgaca gtattgtcag gcagaaatgc ccgtcaaaga gtcagacgac agaataccgg
     2761 cggcaaaact gtcgaaaagt ggtacgcgat ataatcacac gacgcagatg acagacagaa
     2821 cggagaaaac agaaagatga acaagcagca gcaaaccgca cttaacatgg caaaattcat
     2881 aaaaagccag agcctgacgc tgctcgaaaa actggactca ctcgatgctg atgcacaggc
     2941 cgccatgtgt gagaaactgc acgaactcgc agaagaactc cagaacagca tacagacacg
     3001 ctttgaatcg gaaagtggca ccggggaata acagtgttcc tacaccagac aggatgcaga
     3061 acgatatacc ggtgcgtaag gagaaaatac cacataaggc gctcttccgc ttcctcgctc
     3121 actaactcgc tac
//
