LOCUS       CP057416                1948 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB27-C20 plasmid pRHB27-C20_9, complete
            sequence.
ACCESSION   CP057416
VERSION     CP057416.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148263
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1948)
  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 1948)
  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-C20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 146.358368757903x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 08:24:32
            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)                     :: 5,633
            CDSs (total)                      :: 5,500
            Genes (coding)                    :: 5,127
            CDSs (with protein)               :: 5,127
            Genes (RNA)                       :: 133
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 373
            CDSs (without protein)            :: 373
            Pseudo Genes (ambiguous residues) :: 0 of 373
            Pseudo Genes (frameshifted)       :: 136 of 373
            Pseudo Genes (incomplete)         :: 211 of 373
            Pseudo Genes (internal stop)      :: 61 of 373
            Pseudo Genes (multiple problems)  :: 34 of 373
            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..1948
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB27-C20"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB27-C20_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(1896..1948,1..97)
                     /locus_tag="HVY46_28160"
     CDS             join(1896..1948,1..97)
                     /locus_tag="HVY46_28160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMG97791.1"
                     /translation="MPSEYDEQRDANDAQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(839..1072)
                     /locus_tag="HVY46_28165"
     CDS             complement(839..1072)
                     /locus_tag="HVY46_28165"
                     /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="QMG97792.1"
                     /translation="MTMLHLKTISNESIMLKKDDIILIKSYGNEKTKIFLRGVNEVLMI
                     DASFEEVKFAINNDLQDLQGMQAVSAPLKIAT"
                     /name="hypothetical protein"
     Typing          1688..1903
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.908"
                     /coverage="100.0"
                     /evalue="7.28e-73"
ORIGIN
        1 cgaatatgac ctttttgatt taatggcgca ggttactgaa gagaacctgc acgccccggt
       61 ggattttggg ccgcctgtcg gcagggaagc gttataactt ttttcgctgg tcagcgtacg
      121 tgtaatacgc cggtattaca tcttatttct ttattttcat gtgattacag gtggttgtaa
      181 tacgttgtgt attacataaa taaacgggaa attcagtttt taccttttaa ttcatgcaat
      241 tgcgatgaaa atcgcggttg cgtatggtgt atgaccattt taaggttgaa aaataatcaa
      301 ctatggaggg tgatttacgc aggttaaggg gagatcgtga caaaaaaagc gttcctcact
      361 gtatcgttca tgcctgcatg aacgggttat tcttcctgac tacagaatta catcaaaagt
      421 acatcaaaat tacatcactt ttacgtcact tttacatcat ttttacgtca gatctgacct
      481 ctgaactatt cgtacatccg cccctcttcc tgggcctcct gcacgtgctg aaaatggttt
      541 ttccggctgt gccggcaacg cctcacggcc acgcaataaa ttgcgcatcc gttcaccgtt
      601 atcggggtgg ttcgtggtgg ctttcagggc gttcatcgga ttttagccgc taaaatcccg
      661 gccaggtatg tctgtgcata gccatgcagt cgcgccagaa tcatcagggg cgttttttct
      721 cgatatgggc acagaaaggt gtgtgtttca ggccggaggc ctcagaaacg ccctgagggc
      781 ctctcaggcg gtgcacgcaa cggatgttat ggtaaatgtt gagtgctctt actaaaaatc
      841 aggttgctat ttttagcggt gcgcttactg cctgcattcc ctgaagatcc tgaaggtcat
      901 tattgatagc aaactttacc tcttcaaagc tcgcgtcaat cattagaacc tcattcacac
      961 cccgtaaaaa tatttttgtt ttttcgttac catatgattt tattaggata atatcatctt
     1021 tttttagcat gatactttcg ttacttattg ttttgagatg aagcatcgtc atggtttttt
     1081 ttgcatgtgc ttgttaaggg gattgagatt attcctaact ccttgagttt gtacatacaa
     1141 aaaaaacaaa aaaatcctaa tgcccccgtg gtgggtatat aaaaatcacg gggagcgcag
     1201 cgaccttcgt ccagctcgtt tcttgtgtgt ctcaccctgc aaaaggtttg attgtgtggg
     1261 cgctgtgctg acgtctgaga atcacacttt gccgcttact gctgtcttat tcgctcattt
     1321 tatcaggtgc ttgttatcgt acagcgagac ggggtagagc ctaactcttt cgcggttaag
     1381 ttacgttccc accaatttgc ctgtttatcc tgccggagtc cggggcgtag acctgagcgt
     1441 ctaaggtgca gatatgattt taatgtcgtt gaatggtatt aagctggtag tgacatcgct
     1501 agccagccct gctaggattt agattctcac gtctgatcct ggcaggtatc tgcgaagaat
     1561 tagagtaccg aagccctgtg attctgtcac ggggcttttg tacatttagc gcccgagaat
     1621 caaaaacatc ccttcagaac ttatgtaacg cccgccgcag tctcacggca ggagcgcagc
     1681 gaccgagtga gcgaggaggc gacatttcat ccttacctgc atgttgcact tacgccccgc
     1741 agctacattt ttcccctgcc acatgaagca cttccctgaa ttcccacttc gctttaccat
     1801 attaagccag tatacactcc gctagcgctg cgtgactggt tcagggctgc gccccgaaac
     1861 ccgctaacaa ccccttagct actggatatc accccatgcc atctgagtat gatgaacaac
     1921 gggatgcgaa tgatgcgcag cttcccgg
//
