LOCUS       CP057890                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB11-C15 plasmid pRHB11-C15_3, complete
            sequence.
ACCESSION   CP057890
VERSION     CP057890.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148072
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4671)
  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 4671)
  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                     :: RH10 T1-C15
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.4080567001566x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:26:39
            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)                     :: 5,078
            CDSs (total)                      :: 4,962
            Genes (coding)                    :: 4,850
            CDSs (with protein)               :: 4,850
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 46 of 112
            Pseudo Genes (incomplete)         :: 55 of 112
            Pseudo Genes (internal stop)      :: 31 of 112
            Pseudo Genes (multiple problems)  :: 15 of 112
            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..4671
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB11-C15"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB11-C15_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4400..4671,1..487)
                     /locus_tag="HVW55_25365"
     CDS             join(4400..4671,1..487)
                     /locus_tag="HVW55_25365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001555316.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMO11449.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            570..1049
                     /locus_tag="HVW55_25370"
     CDS             570..1049
                     /locus_tag="HVW55_25370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001485345.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMO11450.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            1061..1192
                     /locus_tag="HVW55_25375"
     CDS             1061..1192
                     /locus_tag="HVW55_25375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368419.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="QMO11451.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(2178..2369)
                     /locus_tag="HVW55_25380"
     CDS             complement(2178..2369)
                     /locus_tag="HVW55_25380"
                     /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="QMO11452.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3200..3628)
                     /gene="exc2"
                     /locus_tag="HVW55_25385"
     CDS             complement(3200..3628)
                     /gene="exc2"
                     /locus_tag="HVW55_25385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000830439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="QMO11453.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            complement(3709..4146)
                     /locus_tag="HVW55_25390"
     CDS             complement(3709..4146)
                     /locus_tag="HVW55_25390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="QMO11454.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     Typing          complement(1465..2012)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 taatattact gttggtattg gtcatttgct atctacgcca gatatggcgg catctctccc
       61 ttttacaaga actcatacat ggcatggtca tggtgatgat atggaaaaag aagttgcagc
      121 atcaaaaaaa gaaataaccg atgcttttaa taactttaaa aaagactcta gacaagtacc
      181 aatgaacttg catttatcaa atgatgctgt tattggatta tgtatttccg atgttcagac
      241 tacagagaaa ggcttgcgtt ctttatattc tggttatgat ggtttttcta actctagaaa
      301 aactgcctta gtggatatgg gatttaactt aggaattcct aagctatcga gaaactttcc
      361 gaactttaat gctgctgtga accgtgggga ttgggagtct gcagcacgtg aaagccatcg
      421 aaatcttcat caacgaggcg atcagagaaa caaggataca gcagatcagt tgcgggataa
      481 acattaatag accataacat atagatatga gatgtatttc atcttatatt aaagatgaaa
      541 tacatcaacc tataatggga atggattata tgatcaagcg gttattattc ttatatgttg
      601 ctttattgtt cttatcagaa ggtgcttatg catctgtaac agtattcatt gctccaagtt
      661 gggaaaggaa tacagattca gttaatgaga tatataaata tattgatgat ataaatagta
      721 ataaccatgt catcgatcaa gcatatgtag aacctattag gaaggagtta ggggtatatc
      781 gagattatat ccagaaaaaa ctaattaact ttaatgggaa gggagtttgt aaattatcga
      841 taacaacagg aagtacaggt gttaaagata ttgagcctcc agatgttgtt ttgttaaact
      901 cattggcgga aaactcatca ttagactgta aaaaactgta tagagaaata caaagtattg
      961 ttgataacga tccgtcactt ttatttcctg agaaaataaa gtcaaatggt ttgttatcaa
     1021 ttgatatgat cattgttatg gggagataaa atacaattct atgcgtggtt tggttttttg
     1081 tgcgctaatt ttaatattgc ccggctgtca ggcaaattat atcagggatg ttcaaggagg
     1141 gactgttgcg ccatcttcta gctcagcagc tactggaatc gaaattaggt aaaaagatta
     1201 aaggatcttc ttgagatcct ttttttctac gcgtaatctg ctgcctgtaa acgaaaaaac
     1261 ccacgttctc aggcgtgggt tctttcgaag gttagaagtt tctcaggctt tctaacccga
     1321 ggtaacaggg tgtacaagac cgctgccacc aaatctgtcc tttcagtgta gccgcagtcg
     1381 gtccttcact tcaagaacta cgtatcagca atttcttgta catcctctac cagtggctgc
     1441 tgccagtggc gttaagtcgt gtcttaccgg gttggactca agacgatagt taccggataa
     1501 ggcgcagcgg tcgggctgaa cggggggttc gtgcacacag cccagcttgg agcgaacgac
     1561 ctacaccaag ccgagatacc aacagcgtga gctatgagaa agcgccacgc ttcccgaagg
     1621 gagaaaggcg gacaggtatc cggtaagtgg cagggtcgga acaggagagc gcacgaggga
     1681 gcttccaggg ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc acctctgact
     1741 tgagcgtcaa tttttgtgat gctcgtcagg ggggcggagc ctatggaaaa acgccagcgg
     1801 cgcggccttt tgccctggtt ttgccttttt gctcacatgt tctttccggc attatcccct
     1861 gattctgtgg ataactgtat tacagctttt gagtgagtag acaccgctcg ccgcagccga
     1921 acgaccgagc gtagcgagtc agtgagcgag gaagcggaag agcgcctata ctggcatttt
     1981 ctccttacgc atctgtgcgg catttcacac cggacatgcc gcatgattaa gccagtatac
     2041 actccgctat cgctacgtga ctgggtcatg gctgcgcccc gacacccgct aaaacccgct
     2101 gacgcgccct gacgggcttg tctgctcccg gcattcgctc acagacaagc tgtgaccgtc
     2161 tccgggagct gcatatgtca gagggtttca ccgtcatccc cgaaacgtgc gaggcaactg
     2221 cggtaaagct catcggcgtg gtcgtgaagc gattcacaga tgtctgcctg ttcatccgcg
     2281 tccagttcgt tgagcttctc cagcagggtt aatgtctggc ttctgatgaa gcgggccatg
     2341 ttcagggcgg ttttttcctg tttggtcact ggtctgatgt ctccgtgtaa gggaatttct
     2401 gttcatggga gcatgataac tgtgacgcag gcgagagtga taaagctgag tgagcggtta
     2461 gtcaggggcg caaacattcg aacgcggcca gtgcgatgca ggatagggaa aacgccgtaa
     2521 aacgacgtcc ctttcggcaa tagcaatatc atggcacagc atatcaactg ataaataatc
     2581 cctgtgcagt acagccgctg ttgcataaaa tcgcgctctg cggcgagtgt tttttaatca
     2641 gatattccgc tgatactccg gaaaaacgcg agtctgttct catgtctgaa atgtccacac
     2701 cccacgcaaa accaactttt tgctgatttt ctttttaaat catgttgtta tggttttaaa
     2761 aatgtatttt cttattcaga tttatacaaa agcacgtcgt cgacgaccct atggcgacgc
     2821 tatgacgacc ctgcttaggg tcagtactga ctatctgtag aaaaaacagt taattaatgt
     2881 aggggcgccc ctaggggcgc gtcgcctttt tttacataac acccctgggg gcgctgccag
     2941 gggtgtctgc ccggatatgt agcaatgagc cagggattca cgaactgaaa atgtccgaaa
     3001 atgtgcctca tgggcaccgt atgcgcccaa acagatcgct attcagtttc gtgcatagtc
     3061 atgcaacgcc ctgaaaacga tcctgacgca tttttccggt tttcctgggg gtaaacattt
     3121 ctttttgctg tgcctgcgtc agaatcgcgc tcaacgcgtt ttaatggtgc gtacaattaa
     3181 gggattatgg taaatccact tactgtcttc cctcgtagcc atcgagataa atcgcagaaa
     3241 tcgtgtcagc cagcagcttc attttttccg gtgatggcat atcactgttc gtgtattttc
     3301 tgcccgcaaa ggtggttgtg gttctcagtg actgaaggaa ttcttcagag tggaattctt
     3361 ttatgcgttg ctgtgccgtt tctgctgata ctccggctgc tttgtctttc acccccatct
     3421 ccctgaactg ctgaaagaac ggaatcatca tccgtgtggt gtcagctttc ttggtgtaga
     3481 agttaggatc gaacccatca tctgaagcat aaacataatg ccgggtatgt tgttccaggc
     3541 tggtttttgg ggtacaggct gtgagggctg ctgacacagt tatcagggcg ctaagataca
     3601 tatagcgtgt gccgccagaa cgtttcatgc gagtctcctt accttaatgt atttattttc
     3661 ggtgagttat tatcagaaga ctatcttatc atcagtctct gacagcgttc agcgaccaaa
     3721 caaccgggac cagaatcccc gtttcctttc ctgctccagc gcctgcctga gctgggctat
     3781 ctcattctgt agttgttccc gttctgcttc ctggcgccgg cgctccgtat cctgggcttg
     3841 tttatcctca agcatcagcg tcaggcattg tttcagctcg ttcagctccc ggagaatgcg
     3901 ttctgtctgc tgatcatgag gtttttctgc ctgtcccgct gtgtgccttt ctggtgtctc
     3961 attccgcttt aattcgccgt atgcccggat cagttcacta gtttcaaact cccgtcgtcc
     4021 gtcctggctt gtacggtaac tgacaaggcc tgcgcgcata tcacggtaaa actgtgaacg
     4081 cgatctgccc gtcattttca gtgcgtcccg gagtgtgtgc catgccataa agtgacagtg
     4141 tcccataggt gtctcatctc atggtctcag taaaacatac tgaggccgga gaacggtaat
     4201 gtttgtgctg gtttttgtgg catctggcgg ggatggcaca tggtgtgagt ggctgttttt
     4261 ttgaccgttt tcacaaaaat gaaaatccac agggttgaca gggaaaacgc agcggcgtaa
     4321 ttttaaactg tatataaaac tagtggttat atatacagtt gtattgatcg ttgttttaaa
     4381 tgtcaaagag gaaattaaga tgagtggtat tgaaaattct aatcaaggtc cggggtggca
     4441 tgatcacaat actccctatg gaacaattca tagttatgat ggggacagcc atagcggtta
     4501 tggtgctcat tctggtggta atgggggaaa tcgccatgaa ggtatttctg ataagacaca
     4561 tattagtata ccatctacca gaaactataa tggctactat atgagcatgt gtgttaataa
     4621 tttaaaagcc catgaggggt tcaaaaacac catgtataag gatagcgaag g
//
