LOCUS       CP055734                2848 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHB13-C14 plasmid pRHB13-C14_11, complete
            sequence.
ACCESSION   CP055734
VERSION     CP055734.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148098
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2848)
  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 2848)
  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                     :: RH03 T1-C14
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.3972219793898x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 17:04:29
            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)                     :: 5,159
            CDSs (total)                      :: 5,038
            Genes (coding)                    :: 4,830
            CDSs (with protein)               :: 4,830
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 85 of 208
            Pseudo Genes (incomplete)         :: 110 of 208
            Pseudo Genes (internal stop)      :: 38 of 208
            Pseudo Genes (multiple problems)  :: 24 of 208
            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..2848
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB13-C14"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB13-C14_11"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2659..2848,1..1067))
                     /locus_tag="HVW81_25785"
                     /pseudo=""
     CDS             complement(join(2659..2848,1..1067))
                     /locus_tag="HVW81_25785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010849026.1"
                     /note="internal stop; incomplete; partial on complete
                     genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /name="protein rep"
     gene            complement(51..1067)
                     /locus_tag="HVW81_25790"
     CDS             complement(51..1067)
                     /locus_tag="HVW81_25790"
                     /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="protein rep"
                     /protein_id="QLM74978.1"
                     /translation="MKNPDSPVLSLRDYSTRDTKWDSDRVMADRMAQIYENDSMFSSRG
                     ERMFDCSRRLLFAPKVSRLTGEMKLALRKGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLVERPAARWLFMTLTVKNPPVENTRETLIRMNAAWKRLSDRKEFRSVLGWLRTTEITY
                     GKVPGCCHPHFHVLMMVPPSMLSGNGYVKHARWVEIWSECLRVDYEAGVDIRVVKPKQG
                     WKRPDGVPLPDMHRAALESGVIETMKYTVKSSEVVRDPAWFLELARQTYGLRMVATGGR
                     LKEVLKVDKPETDEDLVGADIPAEPDEFEEQAFWLAFDWWRDEKRYKRNPKADKKKD"
                     /name="protein rep"
     Typing          complement(1659..1737)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="80.0"
                     /evalue="3.88e-17"
ORIGIN
        1 cgtttctgaa tattctccca gtgcatgaat agttcgcgcc tgaaacgcgc tcaatccttc
       61 ttcttgtcag ctttcggatt ccgcttatag cgcttctcat cccgccacca gtcaaacgcc
      121 agccagaagg cttgctcctc gaactcgtcc ggttctgccg gaatatctgc cccaaccaaa
      181 tcctcgtctg tctccggttt atcgactttc agaacctctt tgagacgacc gccggttgcc
      241 accatccgaa gcccgtaggt ctgccgcgcc agctccagaa accacgccgg atcacgcaca
      301 acttccgaag atttcaccgt gtatttcatc gtctcaatga cgcctgactc cagcgccgca
      361 cgatgcatat caggcagggg tacaccatcc ggccgtttcc agccctgttt cggttttacc
      421 acccgaatat ccacacccgc ctcataatcg acacgaaggc attcactcca gatctccacc
      481 cagcgagcat gtttcacata accattaccg gacaacatcg aaggggggac catcatcaga
      541 acgtgaaaat gcggatggca acatcctggc actttcccgt aagtaatttc cgtcgtacgt
      601 aaccagccaa gaaccgacct gaattcctta cgatcactca agcgtttcca tgctgcattc
      661 atccgaatga gtgtttcgcg ggtattttcc acaggaggat ttttgacagt cagcgtcatg
      721 aacaaccagc gggccgcagg acgttcaacc agcaattttg gcaaggcctc ccagaggcga
      781 cgcatccagc ggagagagcg acgacgacta cacaccggac aaaacggaac atgacaaaac
      841 tcccccttcc gaagggccag cttcatttcg ccagtcaggc gggacacctt cggcgcaaac
      901 aacaaccgac gggaacaatc aaacatccgt tctccacgag aggaaaacat cgaatcattt
      961 tcgtaaatct gcgccatcct gtcagccatc actcgatcgc tgtcccattt tgtatcccgc
     1021 gtgctgtaat cacgtaacga gagtaccgga ctgtctggat ttttcatttg caccccccaa
     1081 gaactgggca gatgcggaaa ttttgtgtta gcatttttct gtcacctgtg actctgttgc
     1141 cgaacaacga attccaaact ggtgatcgac ccctggagtg ttaccgcact cgcagggacc
     1201 cctccccgag ctgtttattt tttaaccatc tttttttatc tcttttccat ctatttttac
     1261 cgctcaaagc cgcgccacca ctgggctaag ccaaaataac acagaccgca gttgttgcct
     1321 atagtatata tacaaggaaa cgcgcgcgaa gacctcgcca aagtagacta ttttttgttc
     1381 gattttccga gagcaaaaac aacaaccacg aaagcgtttt cccgacaaaa cacccacagg
     1441 cttttccacc gattttgtga acaacaaaaa acctgcctcg caggtggttg gtcccactgc
     1501 gtgacaccaa ccaccatcac cagtgttttt tctcgtgccg tcgtcaaaca caaaatcgga
     1561 acccacgccg gaggcgcggg accccacgat tttctgtttg acgagtcata aaacggcgaa
     1621 cgctgacaga tttcaatctg actgcgtgag acgttggcgg ggtgtcgggg cgcagccctg
     1681 accaggtggc atttgtctga gtgcgcgtgc gcggtccgac aaatacacat cctgtcccga
     1741 ctttttctcc gaaatgctcg cagaggggcg gcagttttgt gccgttcagc cctccgcagg
     1801 agcgcgctgt ttctcgacga aggagagaaa cgtctaagta cacatccgca cttaacgcgc
     1861 ggatgatttt tggcaccgca gccaccacgg ccgcgcaaaa ttctggcgaa cggacagcaa
     1921 atcattttgc cgtttttgtg ccgcagccgt tccgcgcgat cgacaaactg gcagtcgggg
     1981 gaatctcacg aagtgcgcac ttatacaatc tcaacttcgt ttcgattgtg tgcggtctgc
     2041 gacgcggtga aaaccgcaga taacaggcaa aaaaatcccc ctgtgtcagg gggccgtcaa
     2101 agtcaatttc ctgatgatga tagttatttt gaggtgttgc tatgcccgct caatttgccg
     2161 caggaacacc gcaaaaacaa ctccgatgac gggacaggat gtgggaatgt cggaccgcgc
     2221 acgcgcactc agacattccc cacctggtca gggctgcgcc ccgacaccct cgacaacctg
     2281 cccgggacac gttaaaacga catctgcgcg tttctggagc gcccgttaac catggggatg
     2341 gtattagcgc cgggatgcga cagaaacgcg cttaaaacgc cactgaacgc atcaaacgcg
     2401 aaaaaacgaa taaaaccttg cctgtctgca aaaatcgcgt tagaacgcgt ctgagcgcgt
     2461 ctgaggggtt aaaattcact gtgcgtcaaa tggggattgt tacaccccgc cctcaaacgc
     2521 gctcacttcc ccttcccgtc tacatgcgta aatgttgttg ttttgtatct tttgtgttaa
     2581 gcatcggatg agcgtgtttc ttatcgcatt tccactatca tcaacccgcg aagacctgta
     2641 gaaacacgcc ccccccgact actggacagc agaatcgcac cgcgttaaac atgacatgcg
     2701 cgtttctggt gagcgaaaag ctgtcagccg tggattgccg tagcagagac ccagaaacgc
     2761 gcttaaaacg cttccgagtg cgtcaaaaca aaaaaaacga ctaaatcctt gcccgtttct
     2821 gaaaatcaca ttagaacgct tctgagcg
//
