LOCUS       CP057531                6836 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C10 plasmid pRHB23-C10_7, complete
            sequence.
ACCESSION   CP057531
VERSION     CP057531.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148215
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-C10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 121.496788627939x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:29:45
            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)                    :: 4,533
            CDSs (with protein)               :: 4,533
            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)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 54 of 139
            Pseudo Genes (incomplete)         :: 71 of 139
            Pseudo Genes (internal stop)      :: 35 of 139
            Pseudo Genes (multiple problems)  :: 20 of 139
            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-C10"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C10_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(6156..6836,1..1299)
                     /locus_tag="HVX98_23875"
                     /pseudo=""
     CDS             join(6156..6836,1..1299)
                     /locus_tag="HVX98_23875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015966094.1"
                     /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="site-specific DNA-methyltransferase"
                     /name="site-specific DNA-methyltransferase"
     gene            1307..3943
                     /locus_tag="HVX98_23880"
     CDS             1307..3943
                     /locus_tag="HVX98_23880"
                     /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="QMJ44349.1"
                     /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(5112..5303)
                     /locus_tag="HVX98_23885"
     CDS             complement(5112..5303)
                     /locus_tag="HVX98_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="QMJ44350.1"
                     /translation="MNKQQQTALNMARFIKSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFSDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4950..5034
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.349"
                     /coverage="100.0"
                     /evalue="1.42e-30"
     Typing          5340..5428
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.703"
                     /coverage="91.0"
                     /evalue="2.27e-34"
     Typing          complement(4383..4930)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.948"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacagacttg aagttgcaaa agatttgttg tgcgatgacg ggttaattgc aattagtatt
       61 gatgataatg aattaaatta tttggcctcg ttggctgatg atatttttgg ccgaaaaaat
      121 aggattgcta tattcccaag aataacaaag aaaggaggaa aatccgccag cattttcgca
      181 aagaatcatg attacatact gctttatgtt agaagtttag aaaacaagcg tatgtatgca
      241 gtttcgcacg acgacgataa tttcaaatat aaagatgagt actttgctga gagaggaagc
      301 tacaaactca accaaacctt ggattatgat agccttcaat acagcaaatc acttgattat
      361 ataatagaaa tcaatggtga gaaatattac ccaggtggtg atgaaaattt atttaatgat
      421 agaatgaatg gcaagcataa cagggcggac tgggcttgga gatggagtag gaaattattc
      481 gattttgggt ttgaaaatgg gtttattgaa ataagaaatg gcggccaaag gccaaggata
      541 tatacaaaaa catatcaaaa tgcaaagata tcaaaggacg gaaatgatta tgtcataacc
      601 tactttgata gaacaaagcc attgtcaaca cttgagttta ctgaaaacaa gtattctaac
      661 gacaatgcga caaaacacat tagctccctc ttagggaaaa atatatttga ttatacaaaa
      721 ccagaaaccc tattggctaa gctaatcgaa ataacatcta ctaaaaatga cctaattcta
      781 gactttaatc ttggtagtgg aactacagct gctgttgctc acaaaatggg gcgtcgctat
      841 atcggtattg agcagatgga gtacatcaac gacattacgg tacctcgcct gaaaaaagtc
      901 atcgaaggtg aacagggggg gatctcaaaa gacgttaact ggcagggggg aggcagcttt
      961 gtctacgcag aattgatgga gctgaacgcc tatttcgtgc atgaaattca gaaagcgcag
     1021 tccacggaag aactcgaaaa actctttacc atgatgaaaa cagaggccca tctcaactat
     1081 caggtagagc tggaaaatgt gctgtccgct gagtacgaag tggatggcat cttccgtaag
     1141 gtagctttca gtgaactgga actgcatgag cagaagcagc ttctgattga aatcctcgat
     1201 aaaaataaac tctacgtgaa tgtctctgat atggaggaca gcgaactgag catttcggag
     1261 agcgataaag cctttacccg cagcttctac ggaatggagt gacggcatgg cgaagaaacc
     1321 gaagtcagtc ggcagtgaga agctactgtt taacaggctg aagcagttcg atgaaccagg
     1381 actgttccac gataactatc agacgccgga ctatattcag gaaaacctga aagatgccct
     1441 gcgcccctat cagcacggtg cactgcgtta cctgcattac acgcaacgta aacgggatga
     1501 tgcgctgctg cattatcgcc acctgctgtt tcacatggca accggtgcag ggaaaacgat
     1561 ggtgatggca ggaacgatac tttatctgtt taaagagtta gggtatcaga acttcatttt
     1621 cttcgtgcat acagacgcga ttatccagaa aacgcgagag aacttgctta atccgcaatc
     1681 gccgaagtac ctgttcagtc aggagctgga aatcgacggg gaaaaaatca ccatcgaacc
     1741 gatagaaaca ttcccgtcca taccggaacg taacacgatt tacctcaagc tctctactat
     1801 ccataagatg cacgacgagc tgaacagcta tcgtgagaac agtatcacct acgaggattt
     1861 aaaagaaatc ccccttgtgc tgcttggtga cgaggcacat catttcaacg ccggtactaa
     1921 agctagaggc aagtcgaaaa cctcaccgga gaacgaggag cagacctggg aacgcacgat
     1981 tgagaacatc ctcaacctgc gaccggataa ccgcctgttc gagttcaccg ccaccattga
     2041 ccttgcgaac aaagatatcg ggcagaaata ccgtggtaag gtggtgtatc agtatgacct
     2101 gaaacagttc atgtcagacg gttactcgaa gaaagtcatg ctgctggaag ccaaccagaa
     2161 tgacagcgac aagatgcttg atgcggtact tttaagccag taccgtaaac tgacggcagc
     2221 agatcacggc atcaccggct tcaaaccggt cattctgttc aagtcgaata agattgcgat
     2281 atcaaaggcg aagcaggagg agttttcgca actgatagcc gccatgacac ctgagagcgt
     2341 cagacgtcat ctagctaaca aaaaactcca gctcagctct gacaccagta tctggcataa
     2401 agtgattcag cgttacgcta acagtgattt agtgacggtg actgggcaaa ttcaggagga
     2461 ctttaacgac tttaacctgc tgaacgtcaa caagtcagat ctgctggaag agaatcccgt
     2521 cctgctgaat acactagaag aagtcgataa tccggtgaga gccgtctttg ccgtcgcgaa
     2581 ggtgaatgaa ggctgggacg ttctcaacct ctacgatatt gtccgcatca gcgagcaggc
     2641 gagcagcagc aaaaccagca cggacagcga agcgcagctt atcgggcgag gcgcgcgtta
     2701 ctacccgttc atttatgacg gtcaacgaag cttcacccgc cgttttgata acagtacgaa
     2761 ggatttgagc gtactggagc aactgcacta tcacaccatc aatgaaccgg cgtacatcaa
     2821 aacactgcat gcctctttgg agcaggcgga cattgatgtg catcaggatg gcggcggtac
     2881 gattgaacac gccagactga aagaagattt taaaaagtcc gccgtgtatc aggcgggtaa
     2941 gctgtacttc aacgaagtgg aggagattga gagcagcagc agaaactggg aaacctactc
     3001 gctggaaaca cgctttgaga taccgtatca gaccgtctgc gaggagtcgc tggacaacct
     3061 gacaggcaca aagactggaa tcacaaaacc ggaactactg gtactggacg agcgttttta
     3121 ccgcaaggcg atgcaaagga tcagctttta cgcacttgat aacctgcagc gtttcttccc
     3181 gaaactgaca ggcatccgtg agttcatccg cagtgacgcc tatcttggta agctgaaaat
     3241 tacagtcatc gtaccgcagt cactggattt caccaccgta ccggcaaaag ataagctgca
     3301 cctactggaa accgttctgc tgcgtatctc agagaacgtt cgccgcaatg atcagaaggt
     3361 aaaaggcacg taccgcttta tcagccagcc ggtgaaagag gttattaaag attacagttt
     3421 gcacattgac ccgtcggtag ttattaatca gaaaatcact gctgcaccca ccattggtaa
     3481 aaaatggtac gtgtacgata atgcgatact gaatcagctt gagcatcgcc taattaaaac
     3541 gctggaagca ttcatgccga agctaaaagc gcgttatgac gatatttacg tactgcgtaa
     3601 cgacgagcag tcaacgcgct ttaagctcac ggagttcggc ggcgtgcgcg ggtttatgcc
     3661 agatttcatc atgatactga cgcgccattc ggacaacact tactggcagg tgttccttga
     3721 accgaagggg gatgatcgtt tgctggatga cgcatggaaa gaacggatgc tcgaaaccct
     3781 gaatgatagg gagcgcattg taattgatga aaatgagcac gtcagactgg ttgggattaa
     3841 attctttgcc aacagccaga tggacgtttt tgtcagcgac atgcagaaca agctgaatga
     3901 tggagaatcg ctcgaaacct cctcgctttc cctaccactg taaatcacga caataaataa
     3961 cggagcatta cgctccgtta ttttattgtt atccctaacc acctccccgg gagttgatga
     4021 ttgctcctgt aatggttgca ttgtttgttc ttgctgttgc gaatcattag ttttgaattg
     4081 tggttaaaaa ccgttcgcta tgtttatgcc tagggggatg agggggaaaa gattcaagga
     4141 tcctcttgtg atcctttttt tctgcgcgta atctgctgcc tgtaaacgaa aaaaccaccc
     4201 tggcaggtgg tttttcgaag gttagctaat cctggcagat tatctaaccg ggtaactggc
     4261 ttggaggagc gcagtcacca aaatctgttc tttcagttta gccttaacag gtgcataact
     4321 tcaagacaaa ctcctctaaa tcagttacca gtggctgctg ccagtggcaa taagtcgtgt
     4381 cttaccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc gggctgaacg
     4441 gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgaact gagataccaa
     4501 cagcgtgagc tatgagaaag cgccacgctt cccgaaggga gaaaggcgga caggtatccg
     4561 gtaatcggca gggtcggaac aggagagcgc acgagggagc caccaggggg aaactcctgg
     4621 tatctttaag tcctgtcggg tttcgccacc tctgacttga gcgtcgattt ttgtgatgct
     4681 cgtcaggggg gcggagccta tggaaaaacg ccatcggcgc ggccttttct tggttcttgt
     4741 tttctgctca catgctcctt ttggctttat cccctgattc tgtggatcac cgcattaccg
     4801 tttttgagtg ggctgatacc gctcgccgca gccgaacggc cgagcgtagc gagtcagtga
     4861 gcgaggaagc ggaagagtgc ctgaacaggc atgttctcct tacgcatcta tgcgatattt
     4921 cacaccgcat atgccgctgt tttcttacaa tctgcactga ttccgcacag ttaagccagt
     4981 atacactccg ctatcgctac gtgactggtt cagggctttg tcccgaaacc ccctgatgtg
     5041 ccctgaaggg cttgtctgct cccggcatcc gctcacaggc aagctgtggc cgtctccggg
     5101 agctgtatgt gtcagaggtt ttcaccatca tcactgaagc gagcgaggca actgcggtag
     5161 agttcgtcgg cgtggtcgtg aagtgattcg cagatgtccg cctgttcgtc cgcgtccagc
     5221 tcgttgagtt tttccagcag ggttagcgtc tggcttttga taaatcgcgc catattcagc
     5281 gcagtttgtt gctgtttgtt caccttcggt tgttctccgt cagtaccggg tgtcgggtgg
     5341 accctgacca ggtggtaatt gtaagacgtt gcgcgcgacg gtattacaat tgcacatcct
     5401 gtcctgtttt ttaggaggta tcatggcata tcaactgata aataatccct gtgctgtaca
     5461 gccgctgttg cataaaattt cgctctgcgt cgaggttttt tttatcaaaa attccgcaga
     5521 taccccggaa aaacgcgagt ctgttctcat gcctgaaatg cccacacccc acgcaaaact
     5581 aattttttgc tgatttgctt ttgaaatcat gttgttatgg tttcaaaaat gtattttctt
     5641 tttcagattt atgcaaaagc acgtcgttga cgaccctatg gcgaccctac ttagggtcag
     5701 tactgacaat ctttataaaa aacagttaat taatgtatgg gcgtccctag gggcgcgtcg
     5761 cattttttta caggacaccc ctagcagcgc ccctaggggt gtctgctcag atatgcctgg
     5821 aattcacgta ctgaaaatgt ctgaaaatgt gccttattgg caccgaatgc actcaaaccg
     5881 atcgtcattc actttcatgc atagctatgc atcgagctga aaacgatcct gacgcatttt
     5941 tctggttttc actgggtaaa acatctcttt ttgcggtgtt tgcgtcagaa tcgcgttcag
     6001 cgcgttttag tggtgcgcgc aagagcgttt atgttaaata ccacccattc tgatgcattt
     6061 ccccgcaact gcatccaact catagctgtc gggttccagc accgaacgct ataccttaca
     6121 atcattccaa tatttaacag tcataaggcc atgacatgca gaccgaatta ataaaagaac
     6181 ttaacaaggt tttaaaagca ttcccgcaat tctggaacgg agaggaatta caacgttcaa
     6241 tggtgagtga cgctatcagt caaaagcagc cagaccttat caaggcattg gtcgataatg
     6301 aaaaagtccg ctctgtttat ggtgcggata ttgatggcat ttttatcttt gactttgaca
     6361 aattatgtgg tcttctaaaa tacaaagaat attgggctaa tagcttcact aaataccgga
     6421 acaaagtggg attaactagc gaaggtaaat accttgatta cagttctgat gtggtgctgg
     6481 attttccttt caaggattgt gttcttgaag gtggtatgtc gaaagaagat caaggaaaat
     6541 cagaggttta ctataatgaa atcatcgcgc gagatgaaat agatcatttg ttctcaccga
     6601 aagttctcaa agaagtaaat cgttactcta aagaaggagt aaaaaaagaa agaatattta
     6661 accgtaatga taatttaatt atcagaggaa ataacctaat tgcgttgcac tgtataaaaa
     6721 atatatacga gaagtcagtt aaattaattt atatagatcc accatataat actgatacag
     6781 atagctttaa atataatgat aaatttagtc actctacgtg gctgactttc atgaag
//
