LOCUS       CP057680                2590 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB18-C09 plasmid pRHB18-C09_4, complete
            sequence.
ACCESSION   CP057680
VERSION     CP057680.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148154
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2590)
  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 2590)
  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                     :: RH13 T2-C09
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 72.4714844609595x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:07:55
            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)                     :: 4,799
            CDSs (total)                      :: 4,682
            Genes (coding)                    :: 4,596
            CDSs (with protein)               :: 4,596
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 86
            CDSs (without protein)            :: 86
            Pseudo Genes (ambiguous residues) :: 0 of 86
            Pseudo Genes (frameshifted)       :: 46 of 86
            Pseudo Genes (incomplete)         :: 39 of 86
            Pseudo Genes (internal stop)      :: 20 of 86
            Pseudo Genes (multiple problems)  :: 18 of 86
            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..2590
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB18-C09"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB18-C09_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(1881..2590,1..280))
                     /locus_tag="HVX37_23995"
     CDS             complement(join(1881..2590,1..280))
                     /locus_tag="HVX37_23995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="QML45755.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          853..934
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="93.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(1414..1669)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(1795..1876)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.771"
                     /coverage="93.0"
                     /evalue="1.58e-25"
     Typing          1964..2155
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 cttgccacat cagggagcgc ctccactggc agacaggaca gtgccggaca cggcagaaat
       61 gtgcctcacg cagcctcaga cgcgtttctc cggtttcctt gagggtagac cacccgaaac
      121 gcagtaaacc gccacaggaa gccatacgag ccccgtagtg ctcatattcg gccgcaagca
      181 ggtaaatccc tcccacgtcg tcagaaacgc ttctgtgtgc gtcccagggc gcatcagagg
      241 gggaataatc agtgaggtac tggagtttag ggttttgcat gcacaccgcc ccatactggg
      301 cgatggctcg attgacgtgt tatcattgcc atatcacctg ttgctctcat catgaatcca
      361 gtttctgcag gtggtcacac ccccgaacga tgcccgtcgt tgcgggggtc acttttaacg
      421 caaccactcc cgacagaata actccaaaac cattttccgg caaatccccc ctcaggcctt
      481 gcggcacaag ggctggaggc gaatttgaat cctagagtta tcccttaagt ataaatacaa
      541 ggatcacgcg cgagatttgc ttgaattttg agctggattt tcagtaacca aaaacctccc
      601 aaccccaccc acttacaccc atctcatcca cagactttca ccccgatttt gtgaacaaca
      661 aaaaaccgtc ttgcaggtgg ttggcctcac tccgtgacac caaccaccat ccccagtgtt
      721 ttccccgtgc cgtcgtcaat cacaaaatcg gaacccacgc cagaggcgcg gggccccgcg
      781 attttctgtt tgacgagttc gggaacggtg agcggtacgc ggaatttttt cgcgggccgt
      841 gaggcgttgg cggggtgtcg gggcgcagcc ctgaccaggt ggtaattgtg atagcgtcgc
      901 gtgtgacggt attacaatta cacatcctgt cccgaaaatt cccgccgttt ctcggttttt
      961 tgagcgtcgc agaccgcacg acaaacgaaa cgaagtgaag tttgtataag tgcgcacttc
     1021 gtgagattcc ctgactgcca gtttgtcgat cacgcggaac ggctgcggca caaaaacggc
     1081 aaaatgattt gctgtccggt cgccagaatt tggcgcgtcg gtggcgatgg ctgtacggaa
     1141 cgggaacgac cgcggggtgg ggcgcgtggt gtaaggactt gttacgcgca ccgctaaaac
     1201 gcgctgaacg cgattctgcc gcgaacaccg caaaaaggga tgttttcccc agggtaaacc
     1261 ggaaaaatgc gtcaggaacg ttttcagcgc gttgcatgac tatgcatgaa actgaatggc
     1321 gatcggtttg ggcgcataca gtgcccatga gacatatttt cggacatttt caattcgtga
     1381 atccctgact cattgctaca tatctgaaca gacaccccta gcagcgcccc caggggcgtc
     1441 ctgtaaaaaa acacaccgcg ccgctagcag cacccctaat ataaaattat gttttttatg
     1501 aaaatagtca gtaccacccc tacaaagcgg tgtcggcgca gctacaacac cgcgccgaca
     1561 ccgctttttt aaatatcaca aagagagcaa gagaaactaa tttgtcataa ctctctattt
     1621 ataaagaaaa atcagcaaaa aattgttttt gcgtggggtg tgggcatttc aggcatgaga
     1681 acagactcgc gtttttccgg agtatcagcg gaattcttga ttaagaaaca ctcgacgcag
     1741 agcgaaattt tatgcaacag cggctgtact gcacagggat tatttatcag ttgaaacagg
     1801 acaggatgtg taattgtaat accgtcacac gcgacgctat cacaattacc acctggtcag
     1861 ggctgcgccc cgacactctg ctagtctgat tcagttttat ctttcgtcgg tgagcggcgg
     1921 tactttctga cctcggtttt ccattcgaac gcgatgcgtg aaccgtcatc gtcgccctcg
     1981 gaaatatcat ctccgatcac catgtcggcg tcggtttcct gatcgagttt cagcacatct
     2041 ttgagtgcgc cgccggtcgc cacaaagcgg cgcttgtgcg tctggcgagt cagttcgagg
     2101 aaccattcag gatcggccac catgtcagcc ggcttcgtgg aatatttcag ggtttcggcc
     2161 actgcgccgc gcaccagttc agcggtcgcg caggctaagg actcgccatc cttcggcttg
     2221 cggggtttca ctgcccggac atcaacattc gggtcataat caacccgcag gcactcccgc
     2281 catagctcaa cccagcgttc atgcctgacg taacttttcc catttagcat gccaggagga
     2341 gccatcatca aggtatggaa gtgcgggtgt gcgctgccgt cgctgccgcg ggtaacttcc
     2401 gttgtgcgga tccagccctg aacaggcagg aactccttgc gaaccttcat acgctgaaaa
     2461 gctgcattca tccggttcag catctcgccc agttccccaa tcgcacagtt gcgcacggtc
     2521 agggtcagga acatccagcg ggcatcggga taatccgcca cgatacgcgg cagggactgg
     2581 tagaaacggg
//
