LOCUS       CP058044                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB03-C06 plasmid pRHB03-C06_5, complete
            sequence.
ACCESSION   CP058044
VERSION     CP058044.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147976
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2460)
  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 2460)
  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                     :: RH01 T1-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 115.344480386831x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:29:41
            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)                     :: 4,382
            CDSs (total)                      :: 4,264
            Genes (coding)                    :: 4,002
            CDSs (with protein)               :: 4,002
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 119 of 262
            Pseudo Genes (incomplete)         :: 122 of 262
            Pseudo Genes (internal stop)      :: 45 of 262
            Pseudo Genes (multiple problems)  :: 22 of 262
            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..2460
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB03-C06"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB03-C06_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2262..2460,1..29))
                     /locus_tag="HVV59_21895"
     CDS             complement(join(2262..2460,1..29))
                     /locus_tag="HVV59_21895"
                     /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="QMQ60539.1"
                     /translation="MNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRTS
                     GNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     gene            complement(19..459)
                     /locus_tag="HVV59_21900"
     CDS             complement(19..459)
                     /locus_tag="HVV59_21900"
                     /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="QMQ60537.1"
                     /translation="MDENGEVKQDSKIETFSIPAEPPYVKLYIADIAMIHGLSKSQNDV
                     LLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKNIIAALVDKQIFFRAGRGELEA
                     NPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVMDDEC"
                     /name="hypothetical protein"
     gene            1147..2163
                     /locus_tag="HVV59_21905"
     CDS             1147..2163
                     /locus_tag="HVV59_21905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001707479.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="QMQ60538.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     Typing          1148..2160
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.041"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttttaaaaa gtttatcttc agcattcatc atccattacc ttcgtctgca ccgttcttcc
       61 attggtgtca taactgatct ttaactcaat tttctttctt ctttcgtaaa ttgatggcca
      121 gtctccccgt gcaaaaagaa aggggttagc ttcaagttcc ccacgccctg cccggaagaa
      181 tatttgttta tctacaagag ccgcaattat gtttttaaag gtctgatatt caatatgaac
      241 cctgggctgt atggtttttt caaatctagt ttttgataca gacacaaacc catcccatcc
      301 aatcagcatt gccaattgta aaagcacatc attttgagat tttgataaac catgaatcat
      361 cgcaatgtct gcaatgtata gcttgacgta gggaggttcg gctgggatgg aaaaggtctc
      421 gatcttagag tcttgtttta cctcaccgtt ttcatccatg tatgtatgcc gttcaagcct
      481 agaaatcttt ttcgtattca ctccagcccc acgtttcgcc atgatttagt actcgcattt
      541 aagtactaaa gagacataca gtcaagtcct ttgcatcaag tacgattagt acttgaggtg
      601 agtacgatta gtccttgagg tgagtacgat tagtacttga ggtgagtacg attagtcctt
      661 gaggtgagta cgattcttcg ctctagccct tggtacaagc gggttcccat atctatatct
      721 atatattaag agggaaaata aaggctgaaa aacgccattt ttaaacatcg aaaaacgagc
      781 ttttttgagt ctggagcgta cggatttcta tgtccgggga gtggaaattc cgcttcctcg
      841 aacggacaga ctcgcggcga tgccgctccc taatccgttc ttgcggcgag cggttcctgc
      901 tctttcaaaa acgatattca ttgcctgatt tcgtcagggg cgagcgaagc gagtgccatt
      961 tacccttgac gactcaccgg ataaaacagg cttggcagtg gtggggggtg gcgcggagcg
     1021 acgccttcca cctgccagac tgccgttgat tttgaccttc tggcagcttg ctgcccgaac
     1081 gattttgcgt agcaaagtct agtgagtaca ctatcatcct gatagtggcc cgccggaggc
     1141 atcgcaatgc gatcccccga ctggctggat gtacgccaga acgagggggt aagcatggcg
     1201 aattacgcga taatgcgctg caaaaagctg acgggaatgg gcagtgtggc cagcgctttg
     1261 cagcactgct acagggagcg tgagacgccg aatgctgacg ctgaacggac accagaaaac
     1321 tactgctctg tgtctcagtc ggcagatgag gcgatgggaa agctgcggga gctgttgccg
     1381 gaaaaacgcc gtaaagatgc ggtactggct gttgaatacg ttatgacggc aagccctgag
     1441 tggtggaacg aggccacacc gcggcagcag gcggagtttt tcgcccgctc tgagcaatgg
     1501 ctggagaaga aatacgggaa ggatcgtgtt gtggcggcgg tggttcaccg ggacgaggcc
     1561 accccgcacc tgtctgcgtt cgtggtgcca ttgacgcagg atggacggct gtccgcgaaa
     1621 gagtttattg gcgggcggtc aaagatgcgt gaagatcaga gcacctacgc tgaatcagta
     1681 aaaaaactgg gtcttgagcg cggcatcgag ggaagccgcg ccacgcatca gacagttcag
     1741 cactactacg aatcgataaa ccgtggcacc cgtagccagg tatcgatctc gccggaggcg
     1801 ctggagccgc gtgtattgcg gaagggcatt ttcaccaaag acgtggaaga tcaggcagcc
     1861 atagccaaac gtctaagcca cgcagtgaac gatggctttg caggaaccat cgctatggcc
     1921 tctcagagcg cccagaacgc aaaaagagcg cgtgagctac agaagactat ggatgcgcag
     1981 cagaaacgcc tacagagcgt tacagagcct tttaaggggc tttccagaga gcagatgacc
     2041 gaaatcctga tgatggctca gcggtttaag cagaaaaacc aggaaaagga aaaacagcag
     2101 cgtattgaac gtgaaaaaca gcgacagacg cgatcgcgtg gcatgggtgg tatggagcgt
     2161 tagttttgat gcgatgcagg atagggctaa cgccgcaaag tgacgtcatt tgcggcattc
     2221 cagagatcag gttctgccgc cctgtataac gctgaggcca gctaatccat cagatggtaa
     2281 ttgtattttt tcaaaataga aaaagctgcg tttttctgct ttggtgacaa acccttagtt
     2341 gagtatttat taccgctagt tctacgatat atgctgtaaa cactgcttaa aaaagtacgc
     2401 tcccaaacag tcagaacctc attctttttt agtgaatcat gcagcattag cctgtctaca
//
