LOCUS       CP057745                3971 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB16-C11 plasmid pRHB16-C11_8, complete
            sequence.
ACCESSION   CP057745
VERSION     CP057745.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148136
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-C11
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 74.0769376535989x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:02:20
            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)                     :: 6,063
            CDSs (total)                      :: 5,939
            Genes (coding)                    :: 5,713
            CDSs (with protein)               :: 5,713
            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)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 0 of 226
            Pseudo Genes (frameshifted)       :: 70 of 226
            Pseudo Genes (incomplete)         :: 133 of 226
            Pseudo Genes (internal stop)      :: 42 of 226
            Pseudo Genes (multiple problems)  :: 15 of 226
            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-C11"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB16-C11_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3874..3971,1..91))
                     /locus_tag="HVX19_30295"
     CDS             complement(join(3874..3971,1..91))
                     /locus_tag="HVX19_30295"
                     /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="QMM20269.1"
                     /translation="MLTRKSIDTVLLSVGAEKLSQREWDWMKMLKPMDPPPAMVTTSIL
                     KRRGDTAALTLLQDTGV"
                     /name="hypothetical protein"
     gene            complement(106..288)
                     /locus_tag="HVX19_30300"
     CDS             complement(106..288)
                     /locus_tag="HVX19_30300"
                     /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="QMM20268.1"
                     /translation="MGFWDKAFDVAKTVGKAAWEETKAANEPRQPGGCKLKTAPVRPVV
                     AARPAEYVCSEDLFY"
                     /name="hypothetical protein"
     gene            complement(1354..1548)
                     /locus_tag="HVX19_30305"
     CDS             complement(1354..1548)
                     /locus_tag="HVX19_30305"
                     /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="QMM20270.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2323..2463)
                     /locus_tag="HVX19_30310"
     CDS             complement(2323..2463)
                     /locus_tag="HVX19_30310"
                     /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="QMM20271.1"
                     /translation="MSLSDRELARIIATERHSTPLRAGAAMAELKRRGYANAEEIKALL
                     K"
                     /name="hypothetical protein"
     gene            complement(2665..3864)
                     /locus_tag="HVX19_30315"
     CDS             complement(2665..3864)
                     /locus_tag="HVX19_30315"
                     /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="QMM20272.1"
                     /translation="MLSGFTPRPLKRLFTANQCWTSFLDAGGLRDIEVEAVTKMLACGT
                     RILGVKEFGCDNPDCQHVKYLTNSCGSRACPSCGKKATDLWTATQLNRLPDCDWVHLVF
                     TLPDTLWPVFESNRWLLNDVCRLAVENLLYAARKRGLEPGIFCAIHTYGRRLNWHPHVH
                     VSVTCGGLNKHGQWKKLSFLKDAMRSRWMWNMRQLLLKAWSEGMAMPESLSHITTESQW
                     RSLVLKSGGKYWHVYMSKKTAGGRNTARYLGRYLKKPPIAASRLAHYNGGASLSFRYLD
                     HKTGETATETLTQRELVARMKQHIPEKFFKMVRYFGFLANRVCGEKLPQVYRALGMDKP
                     EPVAKVCYAQMVKQFLSRDPFECVLCGCRMVYRRAIAGLNVSGLKKNARDISLLRYMPA
                     "
                     /name="IS91 family transposase"
     Typing          1199..1281
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.79e-36"
     Typing          1585..1683
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          1813..2057
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.683"
                     /coverage="88.0"
                     /evalue="1.55e-95"
ORIGIN
        1 tgagcatttt catccagtcc cattctcgtt gtgagagctt ctcagcacca acagagagca
       61 gaactgtatc gatacttttg cgggtcaaca taaggggatg agtccttaat aaaacaggtc
      121 ctcagagcat acatattctg cggggcgtgc ggcaacaaca ggacgaaccg gggcggtttt
      181 caatttgcag ccgccaggct gccgtggttc atttgcagct tttgtttctt cccatgcagc
      241 ttttcctacg gttttagcta catcaaaagc tttatcccag aatcccatag tggtctcctt
      301 tatccaatcg gagatgttga tattctgcgg ctacggcatt ttgggcagta gtctggtgtc
      361 ccataacctg ctctgctagt ccattcatgc ttacaatcca agcacttagc tctatatatt
      421 gttggtgcca tcttccacct ctgttaaaca aagaattgta tagtgcactc tacataatcc
      481 gtttaattgg tgtcaacgat gtgctggagg acggctatca ggttgctctt agtgttacta
      541 agaacatgat aactatcaaa aaaaagcaat aaaagcctaa tgcccccgtg gtgggtaatg
      601 tataaatcac ggggagcgta gcgaccttcg tctagatcgt ttctttgttt ttcttacctt
      661 gcaacggctt gattttgtgg gtgaagtgcc agacgtttgc aatcacactt tacctcttac
      721 agctccttag ttgctcattt tatcaggtgc tagttatcgt acagcgagac ggggcagagc
      781 ttaactcttt cgcggttaag ttacgtttcc accagttgcc tgtttatcct gccggagtcc
      841 ggggcgtaga cctgagcatc taaggtgcag atatgggttt aatgtcgttg aatggtatta
      901 agctggtagt gacaatacta gccagccctg ctaggattta gattgctacg tctgatcctg
      961 gcaggtatct gcaaagaatt agagtaccga agccctgtga ttctgtcacg gggcttttgt
     1021 acatttagcg catgaagatc attttgatca tgtcagatcg ttttcaccgc tcgccgcagc
     1081 cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagtgcgcct gatgcggcat
     1141 tttctcctta cgcatctgtg cggtatttca caccgcatat ggtgctcttt cttataatct
     1201 gcactgatgc cgcatagtta agccagtata cactccgcta tcgctacgtg actgggtcag
     1261 ggcttcgccc cgacacccgc tgacgcgccc tggcgggctt gtctgctgcc gaaaacgctc
     1321 gcggacaagc cgtgagcgcc tccgtcagct tcgttatgtt cctgtttcac tttcggtctc
     1381 aaagcgaacc tggatgctgt tctggagttc ttccgcgagt tcgtgcagtc gttcgcacat
     1441 ggccgcctgt tcgtcggcat ccagagcatc cagtttttca agcagtgtca ggctctggct
     1501 tttgataaat cgcgccatat tcagcgcagt ttgttgctgt ttgttcacct tccgttgttc
     1561 tccgtcagta ccgggtgtcg ggtggaccct gaccaggtgg taattgtaag acgttgcggg
     1621 cgacggtatt acaattgcac atcctgtcct gtttttttag gacgtatcat ggcacagcat
     1681 atcaactgat aaataatccc tgtgcagtgc agccgctgtt gcataaaatt tcgctctgcg
     1741 tcgagtgttt cttaatcaat aattccgctg atactccgga aaaacgcgag tctgttctca
     1801 tgcctgaaat gccacacccc acgcaaaact aactttttgc tgatttttct ttaatatcat
     1861 tgagttatgt ttgtggattt atattgttta aatctgattt atttaaaaca gcgtcgttaa
     1921 cgcagctaca acaccgcgcc gacaccgctt tgtaggggtg gtactgacta ttttcataaa
     1981 aaacatcgtt ttatattagg ggtgctgcta gcggcgcggt gtgttttttt acaggatgcc
     2041 cctgggggcg ctgctagggg tgtctattca gatatatagc aatgagtcag ggattcacga
     2101 actgaaaatg tccgaaaatg tgtctcatgg gcactgtatg cgcccaaacc gatcgtcatt
     2161 cactttcatg catagctatg cagtgagctg aaagcgatcc tgacgcattt ttccggttta
     2221 ccccggggaa aacatctctt tttgcggtgt ttgcggcaga atcgcgttca gcgcgtttta
     2281 gcggtgcgta caatgcgacg ttatggtaaa tggagtctat ggttatttta ggagggcttt
     2341 tatttcttcg gcattagcat agcctcttct ttttaactca gccattgcag cgccagctct
     2401 taatggtgtg ctgtggcgtt ctgttgcaat gattcttgct agttcgcgat cgctgagtga
     2461 cactacctct tctctgtact gcttggctcg ttcacgtata ggaaattgaa aaaccagtcg
     2521 ataccattgt ccacgcctta tgccacgtga gcctttctgc ttttcccacc actccggtgg
     2581 tttccctctc tgtatggtcg atttttatac cgtaacaggc tgttttttat actttcaccg
     2641 attcccgggc acacttagcc tgtgtcaggc cggcatatac ctcagtagac tgatatcccg
     2701 cgcgtttttc ttcagccctg atacattcag ccccgcaatg gcccggcggt ataccatccg
     2761 gcagccacac agcacgcatt cgaacgggtc acgactcagg aactgtttca ccatttgtgc
     2821 atagcacact ttcgccactg gttccggttt atccatcccc agtgcacggt acacctgcgg
     2881 cagcttctct ccacacacac ggttggcaag gaacccgaag tacctcacca tcttaaaaaa
     2941 cttctccggg atgtgctgtt tcatcctcgc gaccagctca cgctgtgtca gcgtttccgt
     3001 cgccgtttct cccgttttgt ggtccaggta acggaagctc aggcttgccc ctccgttgta
     3061 atgagccagt cgggaagccg ctattggtgg cttcttcaga taacgaccca ggtagcgtgc
     3121 cgtattccgc cctccggctg tcttcttcga catgtacaca tgccagtatt ttccgccgga
     3181 tttcagcacc aggcttctcc actgtgattc cgtcgtgata tgtgacaacg actccggcat
     3241 tgccatcccc tctgaccacg ctttcagaag cagctgccgc atattccaca tccaccgtga
     3301 acgcatcgcg tctttcagga agctcagctt tttccactga ccatgcttat tcagacctcc
     3361 acaggttaca gacacatgta catgcggatg ccagttgaga cgacggccat acgtgtggat
     3421 ggcgcagaag ataccgggtt ccagcccccg ttttcgggcg gcatacagca gattctccac
     3481 cgccagacgg cacacgtcat tcagcagcca gcggttgctt tcgaacaccg gccacagcgt
     3541 gtccggcagg gtgaagacca gatgtaccca gtcgcagtca ggaagacgat tcagctgtgt
     3601 tgctgtccac aggtctgtgg ccttctttcc gcaggacggg caggcacggc tgccgcatga
     3661 gttggtcagg tactttacgt gctgacagtc cgggttatca cacccgaact cttttacacc
     3721 cagtatccgt gtgccgcagg ccagcatttt ggtgacggct tcaacctcga tatcgcgcag
     3781 accgcccgca tccaggaagg acgtccagca ctggttggct gtgaacagac gtttcagagg
     3841 gcggggagta aaaccggaca acatgaggat ggattaaacc ccggtatcct gtagcagggt
     3901 aagggctgct gtatcgccac ggcgcttcag gatggaggtc gtcaccatcg caggtggtgg
     3961 gtccatgggt t
//
