LOCUS       CP057299                6507 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB30-C10 plasmid pRHB30-C10_7, complete
            sequence.
ACCESSION   CP057299
VERSION     CP057299.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148294
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6507)
  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 6507)
  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 T3-C10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 132.442474658053x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:43:45
            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)                     :: 5,692
            CDSs (total)                      :: 5,565
            Genes (coding)                    :: 5,192
            CDSs (with protein)               :: 5,192
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 373
            CDSs (without protein)            :: 373
            Pseudo Genes (ambiguous residues) :: 0 of 373
            Pseudo Genes (frameshifted)       :: 134 of 373
            Pseudo Genes (incomplete)         :: 212 of 373
            Pseudo Genes (internal stop)      :: 59 of 373
            Pseudo Genes (multiple problems)  :: 31 of 373
            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..6507
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB30-C10"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB30-C10_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(65..259)
                     /locus_tag="HVY77_28350"
     CDS             complement(65..259)
                     /locus_tag="HVY77_28350"
                     /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="QMF70710.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1383..2570)
                     /locus_tag="HVY77_28355"
     CDS             complement(1383..2570)
                     /locus_tag="HVY77_28355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013747467.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /protein_id="QMF70715.1"
                     /translation="MLPRFADIFQQGNRWLNWLEKQPEGSVRPVVTESVTKIMACGTTL
                     MGYTQWCCSSPDCCHTKKVCFRCKSRSCPHCGVKAGAQWIQYLLSLVPDCPWQHIVFTL
                     PCQYWSLVFHNRWLLAEMSRIAADVILEICHQTDVEPGIFTVIHTWGRDQQWHPHIHLS
                     TTAGGVTSGHTWKNLHFYARKVMSMWRYRITRLLSRKYPELVIPDELAVEGNSKRDWNR
                     FLDTHYRRGWNVNISRVMDNATHVAVYFGSYLKKPPVPMSRLEHYAGQDEIGLRYNSHR
                     TKREEYLLMSGDEFMERFSWHVADKGFRMVRYYGFLSPVKRRLLEEVVYVITETVRKTA
                     MQIRWRGMYQRLLKVDPLKCILCGSQMRFTGLKRGYRLAELVLMHERLARQQVCG"
                     /name="IS91 family transposase"
     gene            complement(2570..2935)
                     /locus_tag="HVY77_28360"
     CDS             complement(2570..2935)
                     /locus_tag="HVY77_28360"
                     /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="QMF70711.1"
                     /translation="MARSAKPRKRKPAPQRSKLPRYVVKLHPDDFFDEEDAEVLRFDNF
                     DDAVECCADLGIPFFLDAGNKKLVFWFVRVDDEGYPEIARCTEREFATILAGISAGGMY
                     CPECGTVHWPDGVTPPV"
                     /name="hypothetical protein"
     gene            3847..5145
                     /locus_tag="HVY77_28365"
     CDS             3847..5145
                     /locus_tag="HVY77_28365"
                     /inference="COORDINATES: protein motif:HMM:NF024700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="QMF70712.1"
                     /translation="MMVNFSLSNAFSFMEAQNMSMLAVSSSKDDINLANVVSVRDERIL
                     KSALIFGANASGKSNLMKTISLMKDIVLHSVQAIESGITKNVVPFLLDEAGPTKPSEME
                     MTFIADGIKYRYGLSLFQGKIKEEWLYYTPKTRETILFERDGQLIEINKAAFSESNLFI
                     KDGVIQKTREDVPFVSVVAGFNGEHSKRVVNWFSNVVFLSGSNEGMFTGITMKLINESE
                     DFKAWLKKILPAFQINDIYLDEVAPEFPFGNIKTDDDNLKNLFSSIQNFAKNQKVFSLR
                     VVKKTANGEISVPIDFESEGTKKIVYLLGPIYNAMINNNLLLVDEFDSKFHTLLSKFLF
                     RIFHAQSEGFSQVIAAVQDVNLMNTDCFRRDQIWFVDKDVKSGSSHLYSLVEYKEKQRS
                     LKPSYGNDYLSGAFDAIPLFDNLNEFEKLMPEG"
                     /name="ATP-binding protein"
     gene            5150..5587
                     /locus_tag="HVY77_28370"
     CDS             5150..5587
                     /locus_tag="HVY77_28370"
                     /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="QMF70713.1"
                     /translation="MPKRGKSIRSSSRNEETKPSKSTAKTTDRFISISFKHFHNVDDVG
                     QSINTWKDDGSLPDLIEKLVYLTANGITKVISDGVFTNYTRFPESAVNDFRCPDEISSD
                     EDWGVIKNIGGQKRRVAGFLRDNVFYIVFFDRDHRFWKSQK"
                     /name="hypothetical protein"
     gene            complement(5822..5935)
                     /locus_tag="HVY77_28375"
     CDS             complement(5822..5935)
                     /locus_tag="HVY77_28375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMF70714.1"
                     /translation="MHEPPVQSDRCAFSGNYQLESNPERHDKTPMAAATGN"
                     /name="replication initiation protein"
     Typing          296..394
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          506..775
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.706"
                     /coverage="93.0"
                     /evalue="9.77e-93"
     Typing          6415..6499
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
     Typing          complement(5864..6401)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.993"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctgacgggct tgtctgctga cgaaaacgcc cacgggaaag ccgtgaccgc ctccgtcagc
       61 ttcgttatgt tcctgtttca ctttcggcct caaagcgaat ctggatgctg ttctggagtt
      121 cttctgcgag ttcgtgcagt cgttcgcaca tggccgcctg ttcgtcggca tccagagcat
      181 ccagtttttc aagcagtgtc aggctctggc ttttgataaa tcgcgccata ttcagcgcag
      241 tttgttgttg tttgttcacc ttccgttgtt ctccgtcagt tccgggtgtc ggggggaccc
      301 tgagcaggtg gtaattgtaa gacgttgcgg gcgacggtat tacaattgca catcctgtcc
      361 tgtttcttta ggacgtatca tggcacagca tatcaactga taaataatcc ctgtgcagtg
      421 cagccgctgt tgcataaaat ttcgctctgc gtcgagtgtt tcttaatcaa taattccgct
      481 gatactccgg aaaaacgcga gtctgttctc atgcccgaaa tgcccacacc ccacgcaaaa
      541 acaatttttt gctgattttt ctttataaat agagagttat gacaaattag ttcttcttgc
      601 tctctttgtg atatttaaaa aagcggtgtt ggcgcagcta caacaccgcg ccgacaccgc
      661 tttttagggg tggtactgac tattttcata aaaaacatca tcttatatta gggggggctg
      721 ctagctgcgc ggtgtgtttt tttacaggac gcccctgggg gcgctgccag gggtgtctgt
      781 tcagatatgt agcaatgagt cagggattca cgaactgaaa atgtccgaaa atgtgtctca
      841 tgggcactgt atgcgcccaa accgatcgtc attcactttc atgcatagct atgcagtgag
      901 ctgaaagcga gcctgacgca tttttccggt ttaccccggg gaaaacatct ctttttgcgg
      961 tgtttgcggc agaatcgcgt tcagcgcgtt ttagcggtgc gcgcaatcgg atgttatggt
     1021 aaatccagct gattggcagg tataaaaaag ccgtccgtag acggcctagt aagttacttc
     1081 gtctttgtca tcactaccaa ttcccatcgg atgtcacctg ggacattatg ctgcctatga
     1141 ttttgcggtg gcaaaggatc atctttattg cacgtcactt catcaccaca gttcatcgat
     1201 aggaatttaa atccccaaaa gactaaaaaa gcaccacaaa acggatgttt cttcaacacc
     1261 ccttgtgcac catatgagcg gaaacgacta ttaaacagga tgacactgat tgatacaggg
     1321 tatgaatggc ggttttttgc tccgtttccg gtaaaatgga cgcaacttcc cctctgcggc
     1381 tctcagccgc acacctgctg tcgtgccagt cgctcatgca tcaggaccag ctctgccagt
     1441 cggtaacccc gcttcagccc cgtaaaacgc atctgacttc cgcacagaat gcacttcagc
     1501 gggtcaacct tcagtaacct ctgatacatc cctctccacc tgatttgcat cgccgttttt
     1561 ctcaccgtct ccgttatgac gtacacaact tcttccagta agcggcgctt caccggactc
     1621 aggaaaccgt agtacctcac catacggaac cccttatctg ctacatgcca ggagaacctt
     1681 tccatgaact catctccact catcaacagg tattcttccc gttttgtacg gtgactgttg
     1741 taacgcagac cgatttcatc ctgaccggca taatgctcca gccgactcat cggcaccggt
     1801 ggctttttca ggtaagagcc gaagtacacc gccacatgtg tggcgttatc catcaccctg
     1861 gatatgttga cattccagcc gcggcggtaa tgcgtgtcca ggaagcgatt ccagtcccgt
     1921 ttgctgtttc cttccactgc cagttcatcc ggtattacca gctccgggta tttccgggac
     1981 agtagccgcg ttatccggta acgccacatg ctcatcacct tacgcgcgta aaaatgaaga
     2041 tttttccagg tgtggcccga cgtcacacca ccggcagttg tcgataaatg gatatgcgga
     2101 tgccactgct ggtcacgccc ccatgtgtgg atcaccgtga atatccccgg ctccacatct
     2161 gtctgatggc agatttccag tatcacatcc gctgcaatgc ggctcatctc tgccagtaac
     2221 caccggttgt ggaacaccag ggaccagtac tggcagggaa gtgtgaacac aatatgctgc
     2281 cacgggcagt cggggaccag gctcagcaga tactgtatcc actgtgcgcc agccttcacc
     2341 ccgcagtgcg gacaggagcg gcttttacac cggaagcaga cctttttggt gtggcaacag
     2401 tccggtgacg aacagcacca ttgcgtgtag cccatcagcg tggtcccgca tgccatgatt
     2461 tttgtcactg actcagtcac caccggacgc actgaacctt ccggctgttt ctccagccag
     2521 ttaagccagc ggttaccctg ctgaaaaata tcggcaaaac ggggaagcat cagacgggtg
     2581 gggtaacgcc atccggccag tgaactgtgc cgcattccgg gcagtacata ccaccggcac
     2641 tgataccggc aagaatggtc gcaaactccc gctccgtaca gcgggctatt tccggatacc
     2701 cttcgtcatc gacacgaaca aaccagaaga ccagcttttt gtttcctgca tccagaaaga
     2761 acggaatacc caggtcagcg cagcactcaa cggcatcgtc aaaattatca aagcgcagaa
     2821 cttcagcgtc ttcttcgtca aaaaaatcat ccggatgaag tttcacaaca tagcggggaa
     2881 gtttgcttct ttgtggtgcg ggtttgcgtt tacggggttt agctgaacgg gccatataac
     2941 tacctgaaag acaatgacat tatctttttt tataacggta attccagacc atgacaagcc
     3001 gcagccgcca ggctgcctac tcggtgcagc ggtaaatgcc ggaagccgga caagtatttc
     3061 ccggcttata gtaataccgc catacactcc cttcaggctc ggttgttttt gttaaaaatt
     3121 tcgctgtgct atctacataa aaggccatgt tgctttcctt acataaacta agttagggac
     3181 cgaagcttgc atgcttcggt ggttattgtt ttttcttttc ccgattaatt gggatcttaa
     3241 acattccccc gttaggacgg gttatccgtt tgccctttac cgttatgtaa gggcgaaaaa
     3301 tgtatgcctg aggctcgtcc gtctgcatgt tgcatttcct attttcgcca catgaatgtt
     3361 gatttttgct atcaaaattg tactgtagca accaacagat cttgtggctg gctttatcaa
     3421 agcacttgag gtggtactca agcgccgcat ttgcgtatgg tttgttacgg gttagttctg
     3481 gtggtacagg ctaacccact tacttcaaca atttttgctt ctcctcattc atgtttcact
     3541 ccctacgtat ttttttacag tgtcagcgcc actgagcata aacgcgacaa aaaggaacca
     3601 tccccaccca gataccgagt gaaaagccag cactgctgag ctaatcactg aggcaaatgg
     3661 gaccatttgg tatagaaaaa acttcatata cacctctttt taagctggtc gttaacttat
     3721 ctactcataa tgtgctgtct attggaccct tttgttgttt tagtacgggg ttatgctatt
     3781 cttaatctag aattttgtca atattgtgca atttttgagt ttaagggtgt tgttaggggt
     3841 gttcttatga tggttaactt tagtctttca aacgcatttt ccttcatgga agctcaaaat
     3901 atgagcatgt tggcggtgtc gtcatcgaaa gacgatataa acttggctaa tgtagtgtca
     3961 gtaagggatg agcggatact gaagtctgct ttgattttcg gagctaacgc tagcggaaaa
     4021 tctaatctca tgaagacaat atctttaatg aaagatattg tcctgcattc tgtgcaagct
     4081 atcgaaagtg gcattacgaa gaatgtagtc ccttttttac ttgatgaggc ggggcctact
     4141 aaaccatctg aaatggaaat gacttttatt gcggatggga ttaaatacag atacggatta
     4201 tctttatttc aagggaagat aaaagaagag tggttgtact acacgccaaa aacaagggag
     4261 actattctct ttgagcgaga tggtcaactt attgaaataa ataaagcagc atttagcgag
     4321 tcaaatcttt ttataaagga tggggtcatt cagaagacaa gagaagatgt tccctttgtt
     4381 tctgttgttg ctggatttaa tggggagcac tcaaagcgtg ttgtgaattg gtttagtaat
     4441 gtggtatttc tttctggttc taacgaagga atgtttactg gaattaccat gaagcttata
     4501 aatgaatctg aagattttaa agcttggcta aaaaaaatat taccagcctt tcagattaat
     4561 gatatttatc ttgatgaagt tgcgcctgaa tttccgtttg gcaacataaa aacagatgat
     4621 gataatttaa aaaatttatt cagctcgatt cagaattttg caaaaaatca aaaagtattt
     4681 tctcttagag tcgtgaaaaa aactgctaat ggggagattt cggttcccat tgattttgaa
     4741 tcagagggga ccaaaaagat agtctatctc cttgggccta tttataacgc catgattaac
     4801 aataacttat tattggttga tgagttcgat tcaaagttcc ataccctttt atctaagttt
     4861 ttatttagga tatttcatgc gcaaagtgaa gggtttagcc aagtaatcgc tgcagttcag
     4921 gatgttaatt taatgaatac tgattgcttt agacgagacc aaatttggtt tgttgacaag
     4981 gatgtaaagt cagggagtag ccatctttat tctttggttg agtacaaaga gaaacaaaga
     5041 tcattgaagc catcatatgg gaatgattat ttatcaggtg cttttgatgc aatcccgtta
     5101 tttgataatc ttaatgaatt tgaaaagcta atgcctgagg gatgattata tgccaaagag
     5161 aggcaaaagc attcgaagct cttcgaggaa tgaggaaaca aaaccttcaa agagcacagc
     5221 gaaaacgact gatagattta tatctattag ttttaagcat tttcataacg tcgatgatgt
     5281 tgggcagtcc ataaatacat ggaaagatga tggtagccta cctgatctca ttgaaaaatt
     5341 ggtttatcta acggcgaatg gaatcactaa agtgatttct gacggtgtgt ttactaacta
     5401 cactcgattt cctgagtcag ctgtaaacga ttttagatgc ccagatgaga tatcctctga
     5461 tgaggattgg ggggttataa aaaacattgg cgggcagaaa agaagagtcg ccggatttct
     5521 gagagataat gtgttctata tcgtgttttt tgatagagat catcgcttct ggaagagtca
     5581 aaaatagatg agatacagtt gtattgtatg ttaagaaaag atcttcttga gattgtgatg
     5641 ctctcgtcgt aatctcttgc tctgtaaacg aaaaaaccgc cttggcgggc ggtttttcga
     5701 cggttctaag agttggcgct ctgtgaacca aggtaactgg cttatgagga gcgcagtaac
     5761 caaatctgtt ctttcagttt agccttaaca ggcgcataac ttcaagacta actcctctaa
     5821 atcagttacc agtggctgct gccattggcg ttttgtcgtg tctttccggg ttggactcaa
     5881 gttgatagtt accggaaaag gcgcagcggt cggactgaac ggggggttcg tgcatacagt
     5941 ccagcttgga gcgaactgcc tacccggaac tgagtgtcag gcgtggaatg agacaaacgc
     6001 ggccataaca gcggagtgac accggtaaac cgaatggcag gaacaggaga gcgcacgagg
     6061 gagtcaccag ggggaaacgc ctggtatctt taagtcctgt cgggtttcgc cacctctgac
     6121 ttgagcgtcg gtttttgtga tgctcgtcag gggggcggag cctatggaaa aacgccagcg
     6181 gcgcggcctt cctcctgttc ctggtctttt gctcacatgt tctttccggc cttatcccct
     6241 gattctgtgg ataactgtgt taccgttttt gtgtgagtca gtaccgctcg ccgcagtcga
     6301 acgaccgagc gtagcgagtc agtgagcgag gaagcggaaa agcgcctgga catgcatttt
     6361 ctccttacgc atctgtgcgg catttcacac ccggcatggc gtacttttca tacaatccgc
     6421 actgatgccg catggttaag ccagtataca ctccgctatc gctacgtgac tggttcaggg
     6481 cttcgccccg aaaccccctg acgcgcc
//
