LOCUS       CP057084                1948 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB38-C24 plasmid pRHB38-C24_10, complete
            sequence.
ACCESSION   CP057084
VERSION     CP057084.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148394
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 T3-C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 140.926036525725x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 05:31:07
            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)                     :: 5,830
            CDSs (total)                      :: 5,691
            Genes (coding)                    :: 5,293
            CDSs (with protein)               :: 5,293
            Genes (RNA)                       :: 139
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 103
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 398
            CDSs (without protein)            :: 398
            Pseudo Genes (ambiguous residues) :: 0 of 398
            Pseudo Genes (frameshifted)       :: 138 of 398
            Pseudo Genes (incomplete)         :: 233 of 398
            Pseudo Genes (internal stop)      :: 59 of 398
            Pseudo Genes (multiple problems)  :: 32 of 398
            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="RHB38-C24"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB38-C24_10"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            419..568
                     /locus_tag="HVZ77_29145"
     CDS             419..568
                     /locus_tag="HVZ77_29145"
                     /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="QMC48080.1"
                     /translation="MPSEYDEQRDANDAQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(1310..1501)
                     /locus_tag="HVZ77_29150"
     CDS             complement(1310..1501)
                     /locus_tag="HVZ77_29150"
                     /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="QMC48081.1"
                     /translation="MLKKDDIILIKSYGNEKTKIFLRGVNEVLMIDASFEEVKFAINND
                     LQDLQGMQAVSAPLKIAT"
                     /name="hypothetical protein"
     Typing          211..426
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.908"
                     /coverage="100.0"
                     /evalue="7.28e-73"
ORIGIN
        1 attaagctgg tagtgacatc gctagccagc cctgctagga tttagattct cacgtctgat
       61 cctggcaggt atctgcgaag aattagagta ccgaagccct gtgattctgt cacggggctt
      121 ttgtacattt agcgcccgag aatcaaaaac atcccttcag aacttatgta acgcccgccg
      181 cagtctcacg gcaggagcgc agcgaccgag tgagcgagga ggcgacattt catccttacc
      241 tgcatgttgc acttacgccc cgcagctaca tttttcccct gccacatgaa gcacttccct
      301 gaattcccac ttcgctttac catattaagc cagtatacac tccgctagcg ctgcgtgact
      361 ggttcagggc tgcgccccga aacccgctaa caacccctta gctactggat atcaccccat
      421 gccatctgag tatgatgaac aacgggatgc gaatgatgcg cagcttcccg gcgaatatga
      481 cctttttgat ttaatggcgc aggttactga agagaacctg cacgccccgg tggattttgg
      541 gccgcctgtc ggcagggaag cgttataact tttttcgctg gtcagcgtac gtgtaatacg
      601 ccggtattac atcttatttc tttattttca tgtgattaca ggtggttgta atacgttgtg
      661 tattacataa ataaacggga aattcagttt ttacctttta attcatgcaa ttgcgatgaa
      721 aatcgcggtt gcgtatggtg tatgaccatt ttaaggttga aaaataatca actatggagg
      781 gtgatttacg caggttaagg ggagatcgtg acaaaaaaag cgttcctcac tgtatcgttc
      841 atgcctgcat gaacgggtta ttcttcctga ctacagaatt acatcaaaag tacatcaaaa
      901 ttacatcact tttacgtcac ttttacatca tttttacgtc agatctgacc tctgaactat
      961 tcgtacatcc gcccctcttc ctgggcctcc tgcacgtgct gaaaatggtt tttccggctg
     1021 tgccggcaac gcctcacggc cacgcaataa attgcgcatc cgttcaccgt tatcggggtg
     1081 gttcgtggtg gctttcaggg cgttcatcgg attttagccg ctaaaatccc ggccaggtat
     1141 gtctgtgcat agccatgcag tcgcgccaga atcatcaggg gcgttttttc tcgatatggg
     1201 cacagaaagg tgtgtgtttc aggccggagg cctcagaaac gccctgaggg cctctcaggc
     1261 ggtgcacgca acggatgtta tggtaaatgt tgagtgctct tactaaaaat caggttgcta
     1321 tttttagcgg tgcgcttact gcctgcattc cctgaagatc ctgaaggtca ttattgatag
     1381 caaactttac ctcttcaaag ctcgcgtcaa tcattagaac ctcattcaca ccccgtaaaa
     1441 atatttttgt tttttcgtta ccatatgatt ttattaggat aatatcatct ttttttagca
     1501 tgatactttc gttacttatt gttttgagat gaagcatcgt catggttttt tttgcatgtg
     1561 cttgttaagg ggattgagat tattcctaac tccttgagtt tgtacataca aaaaaaacaa
     1621 aaaaatccta atgcccccgt ggtgggtata taaaaatcac ggggagcgca gcgaccttcg
     1681 tccagctcgt ttcttgtgtg tctcaccctg caaaaggttt gattgtgtgg gcgctgtgct
     1741 gacgtctgag aatcacactt tgccgcttac tgctgtctta ttcgctcatt ttatcaggtg
     1801 cttgttatcg tacagcgaga cggggtagag cctaactctt tcgcggttaa gttacgttcc
     1861 caccaatttg cctgtttatc ctgccggagt ccggggcgta gacctgagcg tctaaggtgc
     1921 agatatgatt ttaatgtcgt tgaatggt
//
