LOCUS       CP057427                4241 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB27-C09 plasmid pRHB27-C09_5, complete
            sequence.
ACCESSION   CP057427
VERSION     CP057427.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148259
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4241)
  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 4241)
  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                     :: RH04 T2-C09
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 191.788268809151x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 08:25:55
            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)                     :: 4,933
            CDSs (total)                      :: 4,814
            Genes (coding)                    :: 4,634
            CDSs (with protein)               :: 4,634
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 180
            CDSs (without protein)            :: 180
            Pseudo Genes (ambiguous residues) :: 0 of 180
            Pseudo Genes (frameshifted)       :: 64 of 180
            Pseudo Genes (incomplete)         :: 110 of 180
            Pseudo Genes (internal stop)      :: 29 of 180
            Pseudo Genes (multiple problems)  :: 22 of 180
            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..4241
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB27-C09"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB27-C09_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3761..4241,1..593))
                     /gene="pst"
                     /locus_tag="HVY42_24650"
     CDS             complement(join(3761..4241,1..593))
                     /gene="pst"
                     /locus_tag="HVY42_24650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001285181.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pesticin"
                     /protein_id="QMH11311.1"
                     /translation="MSDSMIVNGSGSVPAFLFSGSTLSSYRPNFEANSITIALPHYVDL
                     PGRSNFKLMYIMGFPIDTEMEKDSEFSNKIRQESKISKTEGTVSYEQKITVETGQEKDG
                     VKVYRVMVLEGTIAESIEHLDKKENENILNNNRNRIVLADNTVINFDNISQLKEFLRRS
                     VNIVDHDIFSSNGFEGFNPTSHFPSNPDAPYFDSTGVTFGSGVDLGQRSKQDLLNDGVP
                     QSIADKLDGYYMLRGQGAYDKVKSNPLTLSDNEAHLLSNIYIDKFSHKIEGLFNDANIG
                     LRFSDLPLRTRTALVSVGYQKGYYLPKTASDVWDALVAKDWNGLVTAFNDFGGSTSERR
                     KREGALVQQDIDSGLLK"
                     /name="pst"
     gene            823..1119
                     /locus_tag="HVY42_24655"
     CDS             823..1119
                     /locus_tag="HVY42_24655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMH11309.1"
                     /translation="MSKTKSGRHRLSKTDKRLLAALIAAGYEERTARDLIQKHVYTLTQ
                     ADLRHLVSEISNGVGQSQAYDAIYQARRIRLARKYLNEKKPEEGLNAWKGDLP"
                     /name="hypothetical protein"
     gene            3277..3720
                     /locus_tag="HVY42_24660"
     CDS             3277..3720
                     /locus_tag="HVY42_24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001247799.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="pesticin immunity protein"
                     /protein_id="QMH11310.1"
                     /translation="MKPIQLIYSILIYLFIHLGASASDKIYSAKEILLNLEVGSFHNSL
                     SEGVPGEYKNHKTFKETEFTHGEYDKNKYFSLTNNDKSWMISLKIIGIKNDEYTVCFGD
                     FSIIRPPTYVAVNPLILKKTKSGNFRVVKEIKKSIPGCAIYHH"
                     /name="pesticin immunity protein"
     Typing          complement(2160..2243)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="97.0"
                     /evalue="1.13e-36"
     Typing          2257..2811
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.201"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtagagtcaa aatatggcgc gtcaggattg gacggaaaat gacttgtcgg attaaaccct
       61 tcaaaaccat tactggagaa aatatcgtgg tcaacaatat ttaccgaacg acgtaaaaat
      121 tccttcagtt gactaatatt gtcaaagtta atgacagtgt tgtccgctag gacgatgcga
      181 tttcggttat tattcagaat gttttcattc tctttcttat cgagatgttc aatagattct
      241 gcaattgttc cttcaagaac cataacacgg taaactttta caccgtcttt ttcctgacct
      301 gtttcaacag ttattttctg ttcgtaagat acagtccctt cagtttttga aattttactt
      361 tcctgacgga tcttatttga aaattcactg tccttttcca tctccgtatc aatcggaaac
      421 cccatgatat acatcagttt gaaattactg cgaccaggaa gatccacata atgaggcaat
      481 gcaattgtaa ttgaattggc ttcaaaattt ggcctgtaac tactcaacgt gctacctgag
      541 aaaagaaaag caggtacact acctgagcca ttcacaatca tcgaatctga cataagaaaa
      601 tcctctttaa ctttaaaaaa caataaatta acaaaacaat actgtacaca taaccactgg
      661 ttatatatac agttgaaaat tacgctgctt tatttttcct gtcaatagta tgaattttca
      721 tttttgtgat ctaaatcacc cttataaaaa tcaggaaggg aagattcgca gcagaaaaac
      781 agcaccggat aacatcagga gaaaaagcag agaggagata acgtgagcaa aacaaaatct
      841 ggtcgccacc gactgagcaa aacagacaaa cgcctgctgg ctgcacttat cgctgccgga
      901 tatgaagagc ggacagcccg tgacctcatc cagaaacacg tttacacact gacacaggcc
      961 gacctgcgcc atctggtcag tgaaatcagt aacggtgtgg gacagtcaca ggcctacgat
     1021 gcgatttacc aggcaagacg cattcgtctc gcccgcaaat acctgaacga aaaaaaaccg
     1081 gaagaagggc tgaacgcctg gaagggtgat ttaccataat cccttattgt gcgcaccgtt
     1141 aaaacgcgct cagcgcgctt ctggcgcaaa aaccgtaaaa agggatgttt tcccccgggt
     1201 aaaccggaaa aatgcgtcag gaacgctttc agcgcgttgc atgactatgc ataaaactga
     1261 atggcgagcg gtttgggcgc gtctgatgcc cataaggcgt attttctgac gttttcagcc
     1321 ctgataagaa gaaatcagac tgtagttaca gacgagtcgt gagcgattca ctacgggagt
     1381 cgtcggcgag tcatccagta tttttcctcg cgactctctg gcgactcgcc ttctctgaac
     1441 accagagcga cagtgtgttg agtcatcgat aaatcaccga cgactcgttg ccgagtcatc
     1501 cagtagtcgc cgacgacccg cttttgtata aatctgaata agaaaataca ttttttaaaa
     1561 cataacaacc tgatttaaaa aagaaatcag caaaaagtta gttttgcgtg gggtgtgggc
     1621 atccggggca tgagaacaga ctcgcgtttt tctggaggaa ctgcggggat ttttgattaa
     1681 acagtactca tcgcagagcg gaattttatg caacgccggc tgtgctgcac ggggattttt
     1741 aatcccccgg cccgttattc atctccacgg acgacgggga tacataaacc cgacagcaga
     1801 ggacgggtga gcgcgaatcc cagagatgat gaaaaaagag gcagagaaac gcgcccgggc
     1861 acgttttatc ttattgctgt ggtgttgtcc agggtgtcgg ggctgtgccc tgaccaggtg
     1921 gcatttgtct gattgcgcgt gcgcggtccg acaaatgcac atcctgcccc gtcctgtacg
     1981 tgtttttttt caccagaaca acttcacgaa gtggcggatg aacgctacca acgttgccgg
     2041 gaacgcttcg gcgatgatgg cataacgggc tgatacaggc agctcccgga gacggtcaca
     2101 gcttgcctgt gagcggatgc caggagccga caagcccgtc agggcgcgtc agcgggtttt
     2161 agcgggtgtc ggggcgcagc catgacccag tcacgtagcg atagcggagt gtatactggc
     2221 ttaaccatgc ggcatcagtg cgggttgtat gaaaagtgcg ccataccggg tgtgaaatgc
     2281 cgcacagatg cgtaaggaga aaatgcacgt ccaggcgctt ttccgcttcc tcgctcactg
     2341 actcgctacg ctcggtcgtt cgactgcggc gagcggtatc tactcactca aaaacgaaat
     2401 gctgttatcc acagaatcag gggataacgc cggaaagaac atgtgagcaa aagaccagga
     2461 acaggaagaa ggccgcgccg atggcgtttt tccataggct ccgcccccct gacgagcatc
     2521 acaaaaatcg acgctcaagt cagaggtggc gaaacccgac aggactataa agataccagg
     2581 cgtttccccc tggaagctcc ctcgtgcgct ctcctgttcc gaccctgccg cttaccggat
     2641 acctgtccgc ctttctccct tcgggaagcg tggcgctttc tcatagctca cgctgttggt
     2701 atctcagttc ggtgtaggtc gttcgctcca agctgggctg tgtgcacgaa ccccccgttc
     2761 agcccgaccg ctgcgcctta tccggtaact atcgtcttga gtccaacccg gaaaaggcac
     2821 gacttaacgc cactggcagc agccattggt aactggaggt ttgcgggaat tgatctctaa
     2881 aagaagtctt gaagtaatgc cctgactgcg gctacactag aagaacaagt tttggtgact
     2941 gttcctgcta agaatccagt taccgtccgg tttcgaagag ttaccagctc aacgaacccg
     3001 aactaacccg ccttcaggcg ggttttttcg tttacaggca gcagattacg cgctgataac
     3061 aaggatctca agaagatcct ttgatctttt tttctactga accgctattt ccatcaattc
     3121 agaggaggac gatggaaccc cttcccctct ccccctttag cacctgtaat ttattcgcca
     3181 aaaagaaaat aactatctat ccgcaatact attgttacat tacaatcggg attaacagcc
     3241 atcatttata gtagaactaa ttagcaaggt atagatatga agccaataca attaatatat
     3301 tcaatactaa tctatttatt tatccatctt ggtgcttcgg catccgacaa aatatattca
     3361 gcaaaagaaa tattactgaa ccttgaagta ggtagttttc ataattcgct atcagaggga
     3421 gtcccgggag agtacaaaaa ccacaaaaca tttaaagaga ccgagttcac tcacggtgaa
     3481 tatgataaaa acaagtattt ttcacttacg aataatgata agtcatggat gatttcatta
     3541 aagataatcg gaataaaaaa cgatgaatac actgtctgtt tcggcgactt ctccatcatt
     3601 agaccaccaa catatgtagc cgtaaatccg ctgattttaa aaaaaacgaa gtccggtaat
     3661 ttcagagtag taaaagaaat aaaaaaatca atccctggct gtgcaatata tcatcattaa
     3721 aaaattattc ccctcattgt tgttatgagg ggaacacgga ttatttcaat aatcctgaat
     3781 caatatcctg ttgaacaagg gccccttctc tttttcgtcg ttccgatgta cttccaccaa
     3841 aatcattaaa tgcagtaaca agtccattcc agtcttttgc aaccaatgca tcccatacat
     3901 cagaagccgt ttttggtaaa tagtaccctt tctgataacc aacagacacc agtgctgtac
     3961 gggttctcaa aggaagatca ctgaatcgaa gaccgatatt agcatcattg aaaagccctt
     4021 caatcttatg tgagaattta tcaatataaa tattagataa gagatgagct tcattatcgg
     4081 aaagtgtcag cggatttgat tttactttat catatgcacc ctgtccacga agcatataat
     4141 atccgtcaag tttatctgca atactctgag gcacgccatc attcaacaag tcctgtttac
     4201 ttcgctgacc aaggtcaaca cctgagccga atgttacacc t
//
