LOCUS       CP057766                3971 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB16-C07 plasmid pRHB16-C07_8, complete
            sequence.
ACCESSION   CP057766
VERSION     CP057766.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148133
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3971)
  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 3971)
  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                     :: RH02 T2-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 62.6311386817588x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:33:31
            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)                     :: 6,057
            CDSs (total)                      :: 5,933
            Genes (coding)                    :: 5,709
            CDSs (with protein)               :: 5,709
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 224
            CDSs (without protein)            :: 224
            Pseudo Genes (ambiguous residues) :: 0 of 224
            Pseudo Genes (frameshifted)       :: 69 of 224
            Pseudo Genes (incomplete)         :: 132 of 224
            Pseudo Genes (internal stop)      :: 42 of 224
            Pseudo Genes (multiple problems)  :: 15 of 224
            CRISPR Arrays                     :: 1
            ##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..3971
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB16-C07"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB16-C07_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3829..3971,1..1057))
                     /locus_tag="HVX16_30265"
     CDS             complement(join(3829..3971,1..1057))
                     /locus_tag="HVX16_30265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558175.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /protein_id="QMM36538.1"
                     /translation="MLSGFTPRPLKRLFTANQCWTSFLDAGGLRDIEVEAVTKMLACGT
                     RILGVKEFGCDNPDCQHVKYLTNSCGSRACPSCGKKATDLWTATQLNRLPDCDWVHLVF
                     TLPDTLWPVFESNRWLLNDVCRLAVENLLYAARKRGLEPGIFCAIHTYGRRLNWHPHVH
                     VSVTCGGLNKHGQWKKLSFLKDAMRSRWMWNMRQLLLKAWSEGMAMPESLSHITTESQW
                     RSLVLKSGGKYWHVYMSKKTAGGRNTARYLGRYLKKPPIAASRLAHYNGGASLSFRYLD
                     HKTGETATETLTQRELVARMKQHIPEKFFKMVRYFGFLANRVCGEKLPQVYRALGMDKP
                     EPVAKVCYAQMVKQFLSRDPFECVLCGCRMVYRRAIAGLNVSGLKKNARDISLLRYMPA
                     "
                     /name="IS91 family transposase"
     gene            complement(1067..1255)
                     /locus_tag="HVX16_30270"
     CDS             complement(1067..1255)
                     /locus_tag="HVX16_30270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957857.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMM36535.1"
                     /translation="MLTRKSIDTVLLSVGAEKLSQREWDWMKMLKPMDPPPAMVTTSIL
                     KRRGDTAALTLLQDTGV"
                     /name="hypothetical protein"
     gene            complement(1270..1452)
                     /locus_tag="HVX16_30275"
     CDS             complement(1270..1452)
                     /locus_tag="HVX16_30275"
                     /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="QMM36534.1"
                     /translation="MGFWDKAFDVAKTVGKAAWEETKAANEPRQPGGCKLKTAPVRPVV
                     AARPAEYVCSEDLFY"
                     /name="hypothetical protein"
     gene            complement(2518..2712)
                     /locus_tag="HVX16_30280"
     CDS             complement(2518..2712)
                     /locus_tag="HVX16_30280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QMM36536.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3487..3627)
                     /locus_tag="HVX16_30285"
     CDS             complement(3487..3627)
                     /locus_tag="HVX16_30285"
                     /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="QMM36537.1"
                     /translation="MSLSDRELARIIATERHSTPLRAGAAMAELKRRGYANAEEIKALL
                     K"
                     /name="hypothetical protein"
     Typing          2363..2445
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.79e-36"
     Typing          2749..2847
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          2977..3221
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.683"
                     /coverage="88.0"
                     /evalue="1.55e-95"
ORIGIN
        1 tcaccatttg tgcatagcac actttcgcca ctggttccgg tttatccatc cccagtgcac
       61 ggtacacctg cggcagcttc tctccacaca cacggttggc aaggaacccg aagtacctca
      121 ccatcttaaa aaacttctcc gggatgtgct gtttcatcct cgcgaccagc tcacgctgtg
      181 tcagcgtttc cgtcgccgtt tctcccgttt tgtggtccag gtaacggaag ctcaggcttg
      241 cccctccgtt gtaatgagcc agtcgggaag ccgctattgg tggcttcttc agataacgac
      301 ccaggtagcg tgccgtattc cgccctccgg ctgtcttctt cgacatgtac acatgccagt
      361 attttccgcc ggatttcagc accaggcttc tccactgtga ttccgtcgtg atatgtgaca
      421 acgactccgg cattgccatc ccctctgacc acgctttcag aagcagctgc cgcatattcc
      481 acatccaccg tgaacgcatc gcgtctttca ggaagctcag ctttttccac tgaccatgct
      541 tattcagacc tccacaggtt acagacacat gtacatgcgg atgccagttg agacgacggc
      601 catacgtgtg gatggcgcag aagataccgg gttccagccc ccgttttcgg gcggcataca
      661 gcagattctc caccgccaga cggcacacgt cattcagcag ccagcggttg ctttcgaaca
      721 ccggccacag cgtgtccggc agggtgaaga ccagatgtac ccagtcgcag tcaggaagac
      781 gattcagctg tgttgctgtc cacaggtctg tggccttctt tccgcaggac gggcaggcac
      841 ggctgccgca tgagttggtc aggtacttta cgtgctgaca gtccgggtta tcacacccga
      901 actcttttac acccagtatc cgtgtgccgc aggccagcat tttggtgacg gcttcaacct
      961 cgatatcgcg cagaccgccc gcatccagga aggacgtcca gcactggttg gctgtgaaca
     1021 gacgtttcag agggcgggga gtaaaaccgg acaacatgag gatggattaa accccggtat
     1081 cctgtagcag ggtaagggct gctgtatcgc cacggcgctt caggatggag gtcgtcacca
     1141 tcgcaggtgg tgggtccatg ggtttgagca ttttcatcca gtcccattct cgttgtgaga
     1201 gcttctcagc accaacagag agcagaactg tatcgatact tttgcgggtc aacataaggg
     1261 gatgagtcct taataaaaca ggtcctcaga gcatacatat tctgcggggc gtgcggcaac
     1321 aacaggacga accggggcgg ttttcaattt gcagccgcca ggctgccgtg gttcatttgc
     1381 agcttttgtt tcttcccatg cagcttttcc tacggtttta gctacatcaa aagctttatc
     1441 ccagaatccc atagtggtct cctttatcca atcggagatg ttgatattct gcggctacgg
     1501 cattttgggc agtagtctgg tgtcccataa cctgctctgc tagtccattc atgcttacaa
     1561 tccaagcact tagctctata tattgttggt gccatcttcc acctctgtta aacaaagaat
     1621 tgtatagtgc actctacata atccgtttaa ttggtgtcaa cgatgtgctg gaggacggct
     1681 atcaggttgc tcttagtgtt actaagaaca tgataactat caaaaaaaag caataaaagc
     1741 ctaatgcccc cgtggtgggt aatgtataaa tcacggggag cgtagcgacc ttcgtctaga
     1801 tcgtttcttt gtttttctta ccttgcaacg gcttgatttt gtgggtgaag tgccagacgt
     1861 ttgcaatcac actttacctc ttacagctcc ttagttgctc attttatcag gtgctagtta
     1921 tcgtacagcg agacggggca gagcttaact ctttcgcggt taagttacgt ttccaccagt
     1981 tgcctgttta tcctgccgga gtccggggcg tagacctgag catctaaggt gcagatatgg
     2041 gtttaatgtc gttgaatggt attaagctgg tagtgacaat actagccagc cctgctagga
     2101 tttagattgc tacgtctgat cctggcaggt atctgcaaag aattagagta ccgaagccct
     2161 gtgattctgt cacggggctt ttgtacattt agcgcatgaa gatcattttg atcatgtcag
     2221 atcgttttca ccgctcgccg cagccgaacg accgagcgta gcgagtcagt gagcgaggaa
     2281 gcggaagtgc gcctgatgcg gcattttctc cttacgcatc tgtgcggtat ttcacaccgc
     2341 atatggtgct ctttcttata atctgcactg atgccgcata gttaagccag tatacactcc
     2401 gctatcgcta cgtgactggg tcagggcttc gccccgacac ccgctgacgc gccctggcgg
     2461 gcttgtctgc tgccgaaaac gctcgcggac aagccgtgag cgcctccgtc agcttcgtta
     2521 tgttcctgtt tcactttcgg tctcaaagcg aacctggatg ctgttctgga gttcttccgc
     2581 gagttcgtgc agtcgttcgc acatggccgc ctgttcgtcg gcatccagag catccagttt
     2641 ttcaagcagt gtcaggctct ggcttttgat aaatcgcgcc atattcagcg cagtttgttg
     2701 ctgtttgttc accttccgtt gttctccgtc agtaccgggt gtcgggtgga ccctgaccag
     2761 gtggtaattg taagacgttg cgggcgacgg tattacaatt gcacatcctg tcctgttttt
     2821 ttaggacgta tcatggcaca gcatatcaac tgataaataa tccctgtgca gtgcagccgc
     2881 tgttgcataa aatttcgctc tgcgtcgagt gtttcttaat caataattcc gctgatactc
     2941 cggaaaaacg cgagtctgtt ctcatgcctg aaatgccaca ccccacgcaa aactaacttt
     3001 ttgctgattt ttctttaata tcattgagtt atgtttgtgg atttatattg tttaaatctg
     3061 atttatttaa aacagcgtcg ttaacgcagc tacaacaccg cgccgacacc gctttgtagg
     3121 ggtggtactg actattttca taaaaaacat cgttttatat taggggtgct gctagcggcg
     3181 cggtgtgttt ttttacagga tgcccctggg ggcgctgcta ggggtgtcta ttcagatata
     3241 tagcaatgag tcagggattc acgaactgaa aatgtccgaa aatgtgtctc atgggcactg
     3301 tatgcgccca aaccgatcgt cattcacttt catgcatagc tatgcagtga gctgaaagcg
     3361 atcctgacgc atttttccgg tttaccccgg ggaaaacatc tctttttgcg gtgtttgcgg
     3421 cagaatcgcg ttcagcgcgt tttagcggtg cgtacaatgc gacgttatgg taaatggagt
     3481 ctatggttat tttaggaggg cttttatttc ttcggcatta gcatagcctc ttctttttaa
     3541 ctcagccatt gcagcgccag ctcttaatgg tgtgctgtgg cgttctgttg caatgattct
     3601 tgctagttcg cgatcgctga gtgacactac ctcttctctg tactgcttgg ctcgttcacg
     3661 tataggaaat tgaaaaacca gtcgatacca ttgtccacgc cttatgccac gtgagccttt
     3721 ctgcttttcc caccactccg gtggtttccc tctctgtatg gtcgattttt ataccgtaac
     3781 aggctgtttt ttatactttc accgattccc gggcacactt agcctgtgtc aggccggcat
     3841 atacctcagt agactgatat cccgcgcgtt tttcttcagc cctgatacat tcagccccgc
     3901 aatggcccgg cggtatacca tccggcagcc acacagcacg cattcgaacg ggtcacgact
     3961 caggaactgt t
//
