LOCUS       CP057939                4593 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB09-C18 plasmid pRHB09-C18_4, complete
            sequence.
ACCESSION   CP057939
VERSION     CP057939.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148049
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  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 4593)
  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                     :: RH08 T1-C18
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 87.3398554340798x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:58:18
            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)                     :: 4,761
            CDSs (total)                      :: 4,639
            Genes (coding)                    :: 4,479
            CDSs (with protein)               :: 4,479
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 63 of 160
            Pseudo Genes (incomplete)         :: 85 of 160
            Pseudo Genes (internal stop)      :: 33 of 160
            Pseudo Genes (multiple problems)  :: 20 of 160
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB09-C18"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB09-C18_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(401..1240)
                     /locus_tag="HVW32_23755"
     CDS             complement(401..1240)
                     /locus_tag="HVW32_23755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMO85822.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(2251..2442)
                     /locus_tag="HVW32_23760"
     CDS             complement(2251..2442)
                     /locus_tag="HVW32_23760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QMO85823.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2505..2828
                     /locus_tag="HVW32_23765"
     CDS             2505..2828
                     /locus_tag="HVW32_23765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="QMO85826.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2818..3531
                     /locus_tag="HVW32_23770"
                     /pseudo=""
     CDS             2818..3531
                     /locus_tag="HVW32_23770"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3506..4066
                     /locus_tag="HVW32_23775"
     CDS             3506..4066
                     /locus_tag="HVW32_23775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="QMO85824.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            4073..4306
                     /gene="mbeD"
                     /locus_tag="HVW32_23780"
     CDS             4073..4306
                     /gene="mbeD"
                     /locus_tag="HVW32_23780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="QMO85825.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="mbeD"
     Typing          2079..2163
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(1510..2068)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2819..4404
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caggcgcgat cgcggcagtt tttcgggtgg tttgttgctg tttttacctg tctgctgccg
       61 tgatcgcgct gaacgcgttt aagcggtacg cgcaatgcga cgttatggta aatacggagt
      121 attttaattg cgggcctttg ttgtatatct ctgtcgtttg tccccggggg gaagcattac
      181 tgctaacaag tcccgtgaga aaactgcgca atcgtattgc gcaccatgaa cctattctca
      241 accgcaatct ggaggatgat tttgctacga taaagagaat tatcgcgtat cggtgtcagc
      301 attcattgga gtggatgctg aaaaaccagg tgttactccc tctacttaca cttaaacctc
      361 tctaaaaata taagtaagta ctatcgaggg ctatcatgaa ctatggtgcc ctctgagcat
      421 agctacccat tacttcttct atgtcattga ataattcatt tcttaactct aagtattcta
      481 gtaactccat ttctaatgac tctgtcgtga acttaaatct agaaggatct ttgattgagt
      541 ttactagtct tgataacgct ctatatgttt tgagtgaagg ttgcattata gatggaaagt
      601 atttgaaaac ctcttcatct ctgttgaaat taactaaaaa cttgtagtca tcatttataa
      661 atctcaagca tacagcgtca agcttatcgc cttttcttat tattatttct ttataggaaa
      721 gatatttttc agaagataag tcccacatca agcgaaaatc tctctttgcg aacgagttcg
      781 cgtcatcatt gaaaagagat gatgtgatgg ctttggatag accttctgtg tttatctctt
      841 tgttggatgg gtagtaaatt ttattaattg ctttcattct ctcaaatgat gaatataggt
      901 cattatgcca ccttgttgaa atcactcctt tagttatatt ctccttgcta aaattaagcc
      961 ctgtatcaaa aataaatgca gccatcagtg aatatgatat gttttttatt aactcagact
     1021 taaatggttc cgctatggag tagtacagtg ataaaataac taaaaataaa aggtattgtc
     1081 ttacctttcc cgatgagtat atgtaaaggc gatatttatt tattgatagt tttattttgt
     1141 atggaatgat ctcatttctg tcatatcctc ttcgtggtgg agcaaaacaa aagaaacatg
     1201 cagctattaa taaaacaaaa aagatgaaca gtgtaagcaa gttcggctcc tgtgtatgct
     1261 cactatgcat gattgtcttg agatctaacg atcctgaagg tagtcttgtc cgtaaacgaa
     1321 aaaaccgccc agcaaggcgg cttttcgaag gttctcagag cagcaactct ttgaaccaag
     1381 gtaactggct tggaggagca cagccaccaa atctgtcctt tcagtttagc cttaaccggc
     1441 gcataacttc aagactaact cctctaaacg gttaccaatg gctgctgcca gtggcgtttt
     1501 tacgtgtctt tccgggttgg actcaagacg atagttaccg gataaggcgc agcggtcggg
     1561 ctgaacgggg ggttcgtgca cacagcccag cttggagcga acgacctaca ccgggccgag
     1621 ataccaacag cgtgagctat gagaaagcgc cacgcttccc gaagggagaa aggcggacag
     1681 gtatccggta agcggcaggg tcggaacagg agagcgcacg agggagcttc cagggggaaa
     1741 cgcctggtat ctttatagtc ctgtcgggtt tcgccacctc tgacttgagc atctgttttt
     1801 gtgatgctcg tcaggggggc ggagcctatg gaaaaacgcc agcggcgcgg ccttcttcct
     1861 gttcctggcc ttttgctcac atgtttcttt tggcgttatc ccctgattct gtggataacc
     1921 gcatcaccgt ctttgagtga gctgataccg ctcgccgcag ccgaacgacc gagcgtagcg
     1981 agtcagtgag cgaggaagcg gaagagcgcc tgatgcggca ttttctcctt acgcatctgt
     2041 gcggtatttc acaccgcata tggtgcactt ttcttataat ccgcactgat gccacatagt
     2101 taagccagta tacactccgc tatcgctacg tgactgggtc agggctgcgc cccgacaccc
     2161 gctaaaaccc gctgacgcgc cctgacgggc ttgtctgctc ccggcatccg ctcacaggca
     2221 agctgtgaac gtctccggga gctgcatgtt tcagttgctt tcaccgtcat cgccgaagcg
     2281 tgcgaggcaa ctacggtaga gttcgtcggc gtggtcgtga agtgattcgc agatgtctgc
     2341 ctgttcgtcc gcgtccagct cgttgagttt ttccagcagg gtcagcgtct ggcttctgat
     2401 aaagcgggcc atgttaaggg ctgttttttc ctgtttggtc atggtcttaa ggctccttaa
     2461 taggggattt tttaggggga atgataccga tgaaacgcga gaagatgctc acgatacggg
     2521 ttagcgatga ggagcacgcc cggttactgg aacgctgcga gggtaaacga ctggcagaat
     2581 ggatgcggcg ggtctgtctg ggggagccgg ttgcgcgcac aggaaaactg ccgacactat
     2641 cgccgccatt gctgcggcat ctggctgcca tcgggaacaa tctgaaccag acagcccgga
     2701 aggtgaacag cggccactgg tcttcgattg accgggttca tgtggtggcc gctctgatgg
     2761 ccatcgaggg tgaattgcgc cagttgcggc aggctgtcag ggaacagggg ggacgggatg
     2821 atagttaaat ttcatgccag ggggaaaggc ggtggaagtg gcccggtcga ttacctgctg
     2881 gggcgggagc gtaaccgcga aggcgcaacg gtgctccggg gtaacccgga agaaatccgg
     2941 gaactcattg atgccacgcc attttcgaag aaatacacgt caggcgttct gtcgttcgcg
     3001 gagaaggagt taccgccggg tgaacgcgaa agagtgatga cgagctttga gcgtgttctt
     3061 atgcccggtc tcgaaaaaga ccagtacagc attctctggg tggaacacca ggataagggg
     3121 cggctcgaac tgaattttgt cattccgaac atggaactac agagcggtaa gcgcctccag
     3181 ccgtactacg accgtgcgga caggccgagg ataaatgcct ggcagacgct ggttaatcat
     3241 cattacgggc tgcgtgaccc gaacgcaccg gagaacagac ggacgcttgt cacaccgaat
     3301 aatctgccaa aagcgaaaca ggaggccgca gaagcgatta cacggggtct tgaggcgctt
     3361 taccgtgccg gagcaataaa aacgcgtcag gatgtcactg aggcgctcac agcggcaggt
     3421 tttgaggtgg tgaggacaac cagaagcagt atcagtattg ccgacccgga gggggggcgg
     3481 aatctcaggc taaagggggc gctgtatgag caatctttta caaatgggaa cggacttcga
     3541 gaagaaactg aaagagcgag ccgcttctac cgagaacatg ctgaacagcg agttcaggaa
     3601 gctagaagag tctgtagaca aggcactgag cttaaacagg cagaaaatca gagacgctat
     3661 cagcgaacat acaacatccg tgaaacagca actggatacg ctgagcacca ccgtgagcac
     3721 gcagctcagc accacagagg ccgaactgtc ccggcagcag aaaaacctgc tctggcaggt
     3781 gatcaaaggg cgggtactgt ttccggcgct gaccgcgctc agcgtcacgg gcggcatttt
     3841 cctggggtgc tgggggctga ttcagtggca ggaaagcagg attgcgaaaa atatcttgac
     3901 catcagagag caggaaaaca cgctggcgaa actcgaggca aaaacctggg gggtgacgtt
     3961 cgtcaatggc gagaacggga aatttctggt gctgccggac ggggtgaaag gggaaaacac
     4021 ctggacggtg ggcgacaaga acgccgtgag gctggtcagg gagtaaacga gtatgacgga
     4081 actggaaggg catttgctga acgccttaga gcatttgcaa caggactata tgcggcggct
     4141 gaacgagtgg gagagcgcct tcgcagaatt gcagaagatg cacgcggtta cgcaacagaa
     4201 caacgcgata ctgaacgagc gtgtcgtgaa cttgagtcag caggtgcagc tattagccgg
     4261 acaagtcgac cgcttgagtc ggttatttat cacgaacaac agataaggga tgaacaggag
     4321 cgtcaggcgc aggagcttgc ccggcgctgg catgaagagc aggaacccga agcgcggatc
     4381 tggcgtggcc cgtcaatggg gatgtgaccg gggtaccccc tgaaatcgag ccagtttgtg
     4441 gcacgcccta cccggatggc gccaatgtta atgtacgtac attagcatta acaatatcca
     4501 aacctcccca ttttgccccg ttcgacggct ggaacgtgcg aaactgatcg tcattcagtt
     4561 tcgcgcataa ctatgcatga ggttaaaatt tac
//
