LOCUS       CP057551                6836 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C05 plasmid pRHB23-C05_7, complete
            sequence.
ACCESSION   CP057551
VERSION     CP057551.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148212
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6836)
  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 6836)
  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                     :: RH12 T2-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 147.407323264371x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:47:00
            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)                     :: 4,794
            CDSs (total)                      :: 4,672
            Genes (coding)                    :: 4,532
            CDSs (with protein)               :: 4,532
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 56 of 140
            Pseudo Genes (incomplete)         :: 70 of 140
            Pseudo Genes (internal stop)      :: 35 of 140
            Pseudo Genes (multiple problems)  :: 20 of 140
            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..6836
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB23-C05"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C05_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4961..6836,1..761))
                     /locus_tag="HVX95_23875"
     CDS             complement(join(4961..6836,1..761))
                     /locus_tag="HVX95_23875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012443154.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DEAD/DEAH box helicase family protein"
                     /protein_id="QMJ58985.1"
                     /translation="MAKKPKSVGSEKLLFNRLKQFDEPGLFHDNYQTPDYIQENLKDAL
                     RPYQHGALRYLHYTQRKRDDALLHYRHLLFHMATGAGKTMVMAGTILYLFKELGYQNFI
                     FFVHTDAIIQKTRENLLNPQSPKYLFSQELEIDGEKITIEPIETFPSIPERNTIYLKLS
                     TIHKMHDELNSYRENSITYEDLKEIPLVLLGDEAHHFNAGTKARGKSKTSPENEEQTWE
                     RTIENILNLRPDNRLFEFTATIDLANKDIGQKYRGKVVYQYDLKQFMSDGYSKKVMLLE
                     ANQNDSDKMLDAVLLSQYRKLTAADHGITGFKPVILFKSNKIAISKAKQEEFSQLIAAM
                     TPESVRRHLANKKLQLSSDTSIWHKVIQRYANSDLVTVTGQIQEDFNDFNLLNVNKSDL
                     LEENPVLLNTLEEVDNPVRAVFAVAKVNEGWDVLNLYDIVRISEQASSSKTSTDSEAQL
                     IGRGARYYPFIYDGQRSFTRRFDNSTKDLSVLEQLHYHTINEPAYIKTLHASLEQADID
                     VHQDGGGTIEHARLKEDFKKSAVYQAGKLYFNEVEEIESSSRNWETYSLETRFEIPYQT
                     VCEESLDNLTGTKTGITKPELLVLDERFYRKAMQRISFYALDNLQRFFPKLTGIREFIR
                     SDAYLGKLKITVIVPQSLDFTTVPAKDKLHLLETVLLRISENVRRNDQKVKGTYRFISQ
                     PVKEVIKDYSLHIDPSVVINQKITAAPTIGKKWYVYDNAILNQLEHRLIKTLEAFMPKL
                     KARYDDIYVLRNDEQSTRFKLTEFGGVRGFMPDFIMILTRHSDNTYWQVFLEPKGDDRL
                     LDDAWKERMLETLNDRERIVIDENEHVRLVGIKFFANSQMDVFVSDMQNKLNDGESLET
                     SSLSLPL"
                     /name="DEAD/DEAH box helicase family protein"
     gene            complement(766..2748)
                     /locus_tag="HVX95_23880"
     CDS             complement(766..2748)
                     /locus_tag="HVX95_23880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015966094.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="QMJ58986.1"
                     /translation="MQTELIKELNKVLKAFPQFWNGEELQRSMVSDAISQKQPDLIKAL
                     VDNEKVRSVYGADIDGIFIFDFDKLCGLLKYKEYWANSFTKYRNKVGLTSEGKYLDYSS
                     DVVLDFPFKDCVLEGGMSKEDQGKSEVYYNEIIARDEIDHLFSPKVLKEVNRYSKEGVK
                     KERIFNRNDNLIIRGNNLIALHCIKNIYEKSVKLIYIDPPYNTDTDSFKYNDKFSHSTW
                     LTFMKNRLEVAKDLLCDDGLIAISIDDNELNYLASLADDIFGRKNRIAIFPRITKKGGK
                     SASIFAKNHDYILLYVRSLENKRMYAVSHDDDNFKYKDEYFAERGSYKLNQTLDYDSLQ
                     YSKSLDYIIEINGEKYYPGGDENLFNDRMNGKHNRADWAWRWSRKLFDFGFENGFIEIR
                     NGGQRPRIYTKTYQNAKISKDGNDYVITYFDRTKPLSTLEFTENKYSNDNATKHISSLL
                     GKNIFDYTKPETLLAKLIEITSTKNDLILDFNLGSGTTAAVAHKMGRRYIGIEQMEYIN
                     DITVPRLKKVIEGEQGGISKDVNWQGGGSFVYAELMELNAYFVHEIQKAQSTEELEKLF
                     TMMKTEAHLNYQVELENVLSAEYEVDGIFRKVAFSELELHEQKQLLIEILDKNKLYVNV
                     SDMEDSELSISESDKAFTRSFYGME"
                     /name="site-specific DNA-methyltransferase"
     gene            3601..3792
                     /locus_tag="HVX95_23885"
     CDS             3601..3792
                     /locus_tag="HVX95_23885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="QMJ58987.1"
                     /translation="MNKQQQTALNMARFIKSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFSDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3477..3565)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.703"
                     /coverage="91.0"
                     /evalue="2.27e-34"
     Typing          complement(3871..3955)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.349"
                     /coverage="100.0"
                     /evalue="1.42e-30"
     Typing          3975..4522
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.948"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttctgcccga tatctttgtt cgcaaggtca atggtggcgg tgaactcgaa caggcggtta
       61 tccggtcgca ggttgaggat gttctcaatc gtgcgttccc aggtctgctc ctcgttctcc
      121 ggtgaggttt tcgacttgcc tctagcttta gtaccggcgt tgaaatgatg tgcctcgtca
      181 ccaagcagca caagggggat ttcttttaaa tcctcgtagg tgatactgtt ctcacgatag
      241 ctgttcagct cgtcgtgcat cttatggata gtagagagct tgaggtaaat cgtgttacgt
      301 tccggtatgg acgggaatgt ttctatcggt tcgatggtga ttttttcccc gtcgatttcc
      361 agctcctgac tgaacaggta cttcggcgat tgcggattaa gcaagttctc tcgcgttttc
      421 tggataatcg cgtctgtatg cacgaagaaa atgaagttct gataccctaa ctctttaaac
      481 agataaagta tcgttcctgc catcaccatc gttttccctg caccggttgc catgtgaaac
      541 agcaggtggc gataatgcag cagcgcatca tcccgtttac gttgcgtgta atgcaggtaa
      601 cgcagtgcac cgtgctgata ggggcgcagg gcatctttca ggttttcctg aatatagtcc
      661 ggcgtctgat agttatcgtg gaacagtcct ggttcatcga actgcttcag cctgttaaac
      721 agtagcttct cactgccgac tgacttcggt ttcttcgcca tgccgtcact ccattccgta
      781 gaagctgcgg gtaaaggctt tatcgctctc cgaaatgctc agttcgctgt cctccatatc
      841 agagacattc acgtagagtt tatttttatc gaggatttca atcagaagct gcttctgctc
      901 atgcagttcc agttcactga aagctacctt acggaagatg ccatccactt cgtactcagc
      961 ggacagcaca ttttccagct ctacctgata gttgagatgg gcctctgttt tcatcatggt
     1021 aaagagtttt tcgagttctt ccgtggactg cgctttctga atttcatgca cgaaataggc
     1081 gttcagctcc atcaattctg cgtagacaaa gctgcctccc ccctgccagt taacgtcttt
     1141 tgagatcccc ccctgttcac cttcgatgac ttttttcagg cgaggtaccg taatgtcgtt
     1201 gatgtactcc atctgctcaa taccgatata gcgacgcccc attttgtgag caacagcagc
     1261 tgtagttcca ctaccaagat taaagtctag aattaggtca tttttagtag atgttatttc
     1321 gattagctta gccaataggg tttctggttt tgtataatca aatatatttt tccctaagag
     1381 ggagctaatg tgttttgtcg cattgtcgtt agaatacttg ttttcagtaa actcaagtgt
     1441 tgacaatggc tttgttctat caaagtaggt tatgacataa tcatttccgt cctttgatat
     1501 ctttgcattt tgatatgttt ttgtatatat ccttggcctt tggccgccat ttcttatttc
     1561 aataaaccca ttttcaaacc caaaatcgaa taatttccta ctccatctcc aagcccagtc
     1621 cgccctgtta tgcttgccat tcattctatc attaaataaa ttttcatcac cacctgggta
     1681 atatttctca ccattgattt ctattatata atcaagtgat ttgctgtatt gaaggctatc
     1741 ataatccaag gtttggttga gtttgtagct tcctctctca gcaaagtact catctttata
     1801 tttgaaatta tcgtcgtcgt gcgaaactgc atacatacgc ttgttttcta aacttctaac
     1861 ataaagcagt atgtaatcat gattctttgc gaaaatgctg gcggattttc ctcctttctt
     1921 tgttattctt gggaatatag caatcctatt ttttcggcca aaaatatcat cagccaacga
     1981 ggccaaataa tttaattcat tatcatcaat actaattgca attaacccgt catcgcacaa
     2041 caaatctttt gcaacttcaa gtctgttctt catgaaagtc agccacgtag agtgactaaa
     2101 tttatcatta tatttaaagc tatctgtatc agtattatat ggtggatcta tataaattaa
     2161 tttaactgac ttctcgtata tattttttat acagtgcaac gcaattaggt tatttcctct
     2221 gataattaaa ttatcattac ggttaaatat tctttctttt tttactcctt ctttagagta
     2281 acgatttact tctttgagaa ctttcggtga gaacaaatga tctatttcat ctcgcgcgat
     2341 gatttcatta tagtaaacct ctgattttcc ttgatcttct ttcgacatac caccttcaag
     2401 aacacaatcc ttgaaaggaa aatccagcac cacatcagaa ctgtaatcaa ggtatttacc
     2461 ttcgctagtt aatcccactt tgttccggta tttagtgaag ctattagccc aatattcttt
     2521 gtattttaga agaccacata atttgtcaaa gtcaaagata aaaatgccat caatatccgc
     2581 accataaaca gagcggactt tttcattatc gaccaatgcc ttgataaggt ctggctgctt
     2641 ttgactgata gcgtcactca ccattgaacg ttgtaattcc tctccgttcc agaattgcgg
     2701 gaatgctttt aaaaccttgt taagttcttt tattaattcg gtctgcatgt catggcctta
     2761 tgactgttaa atattggaat gattgtaagg tatagcgttc ggtgctggaa cccgacagct
     2821 atgagttgga tgcagttgcg gggaaatgca tcagaatggg tggtatttaa cataaacgct
     2881 cttgcgcgca ccactaaaac gcgctgaacg cgattctgac gcaaacaccg caaaaagaga
     2941 tgttttaccc agtgaaaacc agaaaaatgc gtcaggatcg ttttcagctc gatgcatagc
     3001 tatgcatgaa agtgaatgac gatcggtttg agtgcattcg gtgccaataa ggcacatttt
     3061 cagacatttt cagtacgtga attccaggca tatctgagca gacaccccta ggggcgctgc
     3121 taggggtgtc ctgtaaaaaa atgcgacgcg cccctaggga cgcccataca ttaattaact
     3181 gttttttata aagattgtca gtactgaccc taagtagggt cgccataggg tcgtcaacga
     3241 cgtgcttttg cataaatctg aaaaagaaaa tacatttttg aaaccataac aacatgattt
     3301 caaaagcaaa tcagcaaaaa attagttttg cgtggggtgt gggcatttca ggcatgagaa
     3361 cagactcgcg tttttccggg gtatctgcgg aatttttgat aaaaaaaacc tcgacgcaga
     3421 gcgaaatttt atgcaacagc ggctgtacag cacagggatt atttatcagt tgatatgcca
     3481 tgatacctcc taaaaaacag gacaggatgt gcaattgtaa taccgtcgcg cgcaacgtct
     3541 tacaattacc acctggtcag ggtccacccg acacccggta ctgacggaga acaaccgaag
     3601 gtgaacaaac agcaacaaac tgcgctgaat atggcgcgat ttatcaaaag ccagacgcta
     3661 accctgctgg aaaaactcaa cgagctggac gcggacgaac aggcggacat ctgcgaatca
     3721 cttcacgacc acgccgacga actctaccgc agttgcctcg ctcgcttcag tgatgatggt
     3781 gaaaacctct gacacataca gctcccggag acggccacag cttgcctgtg agcggatgcc
     3841 gggagcagac aagcccttca gggcacatca gggggtttcg ggacaaagcc ctgaaccagt
     3901 cacgtagcga tagcggagtg tatactggct taactgtgcg gaatcagtgc agattgtaag
     3961 aaaacagcgg catatgcggt gtgaaatatc gcatagatgc gtaaggagaa catgcctgtt
     4021 caggcactct tccgcttcct cgctcactga ctcgctacgc tcggccgttc ggctgcggcg
     4081 agcggtatca gcccactcaa aaacggtaat gcggtgatcc acagaatcag gggataaagc
     4141 caaaaggagc atgtgagcag aaaacaagaa ccaagaaaag gccgcgccga tggcgttttt
     4201 ccataggctc cgcccccctg acgagcatca caaaaatcga cgctcaagtc agaggtggcg
     4261 aaacccgaca ggacttaaag ataccaggag tttccccctg gtggctccct cgtgcgctct
     4321 cctgttccga ccctgccgat taccggatac ctgtccgcct ttctcccttc gggaagcgtg
     4381 gcgctttctc atagctcacg ctgttggtat ctcagttcgg tgtaggtcgt tcgctccaag
     4441 ctgggctgtg tgcacgaacc ccccgttcag cccgaccgct gcgccttatc cggtaactat
     4501 cgtcttgagt ccaacccggt aagacacgac ttattgccac tggcagcagc cactggtaac
     4561 tgatttagag gagtttgtct tgaagttatg cacctgttaa ggctaaactg aaagaacaga
     4621 ttttggtgac tgcgctcctc caagccagtt acccggttag ataatctgcc aggattagct
     4681 aaccttcgaa aaaccacctg ccagggtggt tttttcgttt acaggcagca gattacgcgc
     4741 agaaaaaaag gatcacaaga ggatccttga atcttttccc cctcatcccc ctaggcataa
     4801 acatagcgaa cggtttttaa ccacaattca aaactaatga ttcgcaacag caagaacaaa
     4861 caatgcaacc attacaggag caatcatcaa ctcccgggga ggtggttagg gataacaata
     4921 aaataacgga gcgtaatgct ccgttattta ttgtcgtgat ttacagtggt agggaaagcg
     4981 aggaggtttc gagcgattct ccatcattca gcttgttctg catgtcgctg acaaaaacgt
     5041 ccatctggct gttggcaaag aatttaatcc caaccagtct gacgtgctca ttttcatcaa
     5101 ttacaatgcg ctccctatca ttcagggttt cgagcatccg ttctttccat gcgtcatcca
     5161 gcaaacgatc atcccccttc ggttcaagga acacctgcca gtaagtgttg tccgaatggc
     5221 gcgtcagtat catgatgaaa tctggcataa acccgcgcac gccgccgaac tccgtgagct
     5281 taaagcgcgt tgactgctcg tcgttacgca gtacgtaaat atcgtcataa cgcgctttta
     5341 gcttcggcat gaatgcttcc agcgttttaa ttaggcgatg ctcaagctga ttcagtatcg
     5401 cattatcgta cacgtaccat tttttaccaa tggtgggtgc agcagtgatt ttctgattaa
     5461 taactaccga cgggtcaatg tgcaaactgt aatctttaat aacctctttc accggctggc
     5521 tgataaagcg gtacgtgcct tttaccttct gatcattgcg gcgaacgttc tctgagatac
     5581 gcagcagaac ggtttccagt aggtgcagct tatcttttgc cggtacggtg gtgaaatcca
     5641 gtgactgcgg tacgatgact gtaattttca gcttaccaag ataggcgtca ctgcggatga
     5701 actcacggat gcctgtcagt ttcgggaaga aacgctgcag gttatcaagt gcgtaaaagc
     5761 tgatcctttg catcgccttg cggtaaaaac gctcgtccag taccagtagt tccggttttg
     5821 tgattccagt ctttgtgcct gtcaggttgt ccagcgactc ctcgcagacg gtctgatacg
     5881 gtatctcaaa gcgtgtttcc agcgagtagg tttcccagtt tctgctgctg ctctcaatct
     5941 cctccacttc gttgaagtac agcttacccg cctgatacac ggcggacttt ttaaaatctt
     6001 ctttcagtct ggcgtgttca atcgtaccgc cgccatcctg atgcacatca atgtccgcct
     6061 gctccaaaga ggcatgcagt gttttgatgt acgccggttc attgatggtg tgatagtgca
     6121 gttgctccag tacgctcaaa tccttcgtac tgttatcaaa acggcgggtg aagcttcgtt
     6181 gaccgtcata aatgaacggg tagtaacgcg cgcctcgccc gataagctgc gcttcgctgt
     6241 ccgtgctggt tttgctgctg ctcgcctgct cgctgatgcg gacaatatcg tagaggttga
     6301 gaacgtccca gccttcattc accttcgcga cggcaaagac ggctctcacc ggattatcga
     6361 cttcttctag tgtattcagc aggacgggat tctcttccag cagatctgac ttgttgacgt
     6421 tcagcaggtt aaagtcgtta aagtcctcct gaatttgccc agtcaccgtc actaaatcac
     6481 tgttagcgta acgctgaatc actttatgcc agatactggt gtcagagctg agctggagtt
     6541 ttttgttagc tagatgacgt ctgacgctct caggtgtcat ggcggctatc agttgcgaaa
     6601 actcctcctg cttcgccttt gatatcgcaa tcttattcga cttgaacaga atgaccggtt
     6661 tgaagccggt gatgccgtga tctgctgccg tcagtttacg gtactggctt aaaagtaccg
     6721 catcaagcat cttgtcgctg tcattctggt tggcttccag cagcatgact ttcttcgagt
     6781 aaccgtctga catgaactgt ttcaggtcat actgatacac caccttacca cggtat
//
