LOCUS       CP057887                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB11-C16 plasmid pRHB11-C16_3, complete
            sequence.
ACCESSION   CP057887
VERSION     CP057887.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148073
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-C16
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 75.2661260222446x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:34:21
            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)                     :: 4,940
            CDSs (total)                      :: 4,821
            Genes (coding)                    :: 4,712
            CDSs (with protein)               :: 4,712
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 109
            CDSs (without protein)            :: 109
            Pseudo Genes (ambiguous residues) :: 0 of 109
            Pseudo Genes (frameshifted)       :: 52 of 109
            Pseudo Genes (incomplete)         :: 41 of 109
            Pseudo Genes (internal stop)      :: 37 of 109
            Pseudo Genes (multiple problems)  :: 18 of 109
            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-C16"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB11-C16_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4591..4671,1..111)
                     /locus_tag="HVW56_24675"
     CDS             join(4591..4671,1..111)
                     /locus_tag="HVW56_24675"
                     /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="QMO06599.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1097..1228)
                     /locus_tag="HVW56_24680"
     CDS             complement(1097..1228)
                     /locus_tag="HVW56_24680"
                     /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="QMO06600.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(1240..1719)
                     /locus_tag="HVW56_24685"
     CDS             complement(1240..1719)
                     /locus_tag="HVW56_24685"
                     /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="QMO06601.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(1802..2560)
                     /locus_tag="HVW56_24690"
     CDS             complement(1802..2560)
                     /locus_tag="HVW56_24690"
                     /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="QMO06602.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            2814..3251
                     /locus_tag="HVW56_24695"
     CDS             2814..3251
                     /locus_tag="HVW56_24695"
                     /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="QMO06603.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            3332..3760
                     /gene="exc2"
                     /locus_tag="HVW56_24700"
     CDS             3332..3760
                     /gene="exc2"
                     /locus_tag="HVW56_24700"
                     /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="QMO06604.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     Typing          278..825
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gaactggacg cggatgaaca ggcagacatc tgtgaatcgc ttcacgacca cgccgatgag
       61 ctttaccgca gttgcctcgc acgtttcggg gatgacggtg aaaccctctg acatatgcag
      121 ctcccggaga cggtcacagc ttgtctgtga gcgaatgccg ggagcagaca agcccgtcag
      181 ggcgcgtcag cgggttttag cgggtgtcgg ggcgcagcca tgacccagtc acgtagcgat
      241 agcggagtgt atactggctt aatcatgcgg catgtccggt gtgaaatgcc gcacagatgc
      301 gtaaggagaa aatgccagta taggcgctct tccgcttcct cgctcactga ctcgctacgc
      361 tcggtcgttc ggctgcggcg agcggtgtct actcactcaa aagctgtaat acagttatcc
      421 acagaatcag gggataatgc cggaaagaac atgtgagcaa aaaggcaaaa ccagggcaaa
      481 aggccgcgcc gctggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaatt
      541 gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc
      601 ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc acttaccgga tacctgtccg
      661 cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg tatctcggct
      721 tggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt cagcccgacc
      781 gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac gacttaacgc
      841 cactggcagc agccactggt agaggatgta caagaaattg ctgatacgta gttcttgaag
      901 tgaaggaccg actgcggcta cactgaaagg acagatttgg tggcagcggt cttgtacacc
      961 ctgttacctc gggttagaaa gcctgagaaa cttctaacct tcgaaagaac ccacgcctga
     1021 gaacgtgggt tttttcgttt acaggcagca gattacgcgt agaaaaaaag gatctcaaga
     1081 agatccttta atctttttac ctaatttcga ttccagtagc tgctgagcta gaagatggcg
     1141 caacagtccc tccttgaaca tccctgatat aatttgcctg acagccgggc aatattaaaa
     1201 ttagcgcaca aaaaaccaaa ccacgcatag aattgtattt tatctcccca taacaatgat
     1261 catatcaatt gataacaaac catttgactt tattttctca ggaaataaaa gtgacggatc
     1321 gttatcaaca atactttgta tttctctata cagtttttta cagtctaatg atgagttttc
     1381 cgccaatgag tttaacaaaa caacatctgg aggctcaata tctttaacac ctgtacttcc
     1441 tgttgttatc gataatttac aaactccctt cccattaaag ttaattagtt ttttctggat
     1501 ataatctcga tataccccta actccttcct aataggttct acatatgctt gatcgatgac
     1561 atggttatta ctatttatat catcaatata tttatatatc tcattaactg aatctgtatt
     1621 cctttcccaa cttggagcaa tgaatactgt tacagatgca taagcacctt ctgataagaa
     1681 caataaagca acatataaga ataataaccg cttgatcata taatccattc ccattatagg
     1741 ttgatgtatt tcatctttaa tataagatga aatacatctc atatctatat gttatggtct
     1801 attaatgttt atcccgcaac tgatctgctg tatccttgtt tctctgatcg cctcgttgat
     1861 gaagatttcg atggctttca cgtgctgcag actcccaatc cccacggttc acagcagcat
     1921 taaagttcgg aaagtttctc gatagcttag gaattcctaa gttaaatccc atatccacta
     1981 aggcagtttt tctagagtta gaaaaaccat cataaccaga atataaagaa cgcaagcctt
     2041 tctctgtagt ctgaacatcg gaaatacata atccaataac agcatcattt gataaatgca
     2101 agttcattgg tacttgtcta gagtcttttt taaagttatt aaaagcatcg gttatttctt
     2161 tttttgatgc tgcaacttct ttttccatat catcaccatg accatgccat gtatgagttc
     2221 ttgtaaaagg gagagatgcc gccatatctg gcgtagatag caaatgacca ataccaacag
     2281 taatattacc ttcgctatcc ttatacatgg tgtttttgaa cccctcatgg gcttttaaat
     2341 tattaacaca catgctcata tagtagccat tatagtttct ggtagatggt atactaatat
     2401 gtgtcttatc agaaatacct tcatggcgat ttcccccatt accaccagaa tgagcaccat
     2461 aaccgctatg gctgtcccca tcataactat gaattgttcc atagggagta ttgtgatcat
     2521 gccaccccgg accttgatta gaattttcaa taccactcat cttaatttcc tctttgacat
     2581 ttaaaacaac gatcaataca actgtatata taaccactag ttttatatac agtttaaaat
     2641 tacgccgctg cgttttccct gtcaaccctg tggattttca tttttgtgaa aacggtcaaa
     2701 aaaacagcca ctcacaccat gtgccatccc cgccagatgc cacaaaaacc agcacaaaca
     2761 ttaccgttct ccggcctcag tatgttttac tgagaccatg agatgagaca cctatgggac
     2821 actgtcactt tatggcatgg cacacactcc gggacgcact gaaaatgacg ggcagatcgc
     2881 gttcacagtt ttaccgtgat atgcgcgcag gccttgtcag ttaccgtaca agccaggacg
     2941 gacgacggga gtttgaaact agtgaactga tccgggcata cggcgaatta aagcggaatg
     3001 agacaccaga aaggcacaca gcgggacagg cagaaaaacc tcatgatcag cagacagaac
     3061 gcattctccg ggagctgaac gagctgaaac aatgcctgac gctgatgctt gaggataaac
     3121 aagcccagga tacggagcgc cggcgccagg aagcagaacg ggaacaacta cagaatgaga
     3181 tagcccagct caggcaggcg ctggagcagg aaaggaaacg gggattctgg tcccggttgt
     3241 ttggtcgctg aacgctgtca gagactgatg ataagatagt cttctgataa taactcaccg
     3301 aaaataaata cattaaggta aggagactcg catgaaacgt tctggcggca cacgctatat
     3361 gtatcttagc gccctgataa ctgtgtcagc agccctcaca gcctgtaccc caaaaaccag
     3421 cctggaacaa catacccggc attatgttta tgcttcagat gatgggttcg atcctaactt
     3481 ctacaccaag aaagctgaca ccacacggat gatgattccg ttctttcagc agttcaggga
     3541 gatgggggtg aaagacaaag cagccggagt atcagcagaa acggcacagc aacgcataaa
     3601 agaattccac tctgaagaat tccttcagtc actgagaacc acaaccacct ttgcgggcag
     3661 aaaatacacg aacagtgata tgccatcacc ggaaaaaatg aagctgctgg ctgacacgat
     3721 ttctgcgatt tatctcgatg gctacgaggg aagacagtaa gtggatttac cataatccct
     3781 taattgtacg caccattaaa acgcgttgag cgcgattctg acgcaggcac agcaaaaaga
     3841 aatgtttacc cccaggaaaa ccggaaaaat gcgtcaggat cgttttcagg gcgttgcatg
     3901 actatgcacg aaactgaata gcgatctgtt tgggcgcata cggtgcccat gaggcacatt
     3961 ttcggacatt ttcagttcgt gaatccctgg ctcattgcta catatccggg cagacacccc
     4021 tggcagcgcc cccaggggtg ttatgtaaaa aaaggcgacg cgcccctagg ggcgccccta
     4081 cattaattaa ctgttttttc tacagatagt cagtactgac cctaagcagg gtcgtcatag
     4141 cgtcgccata gggtcgtcga cgacgtgctt ttgtataaat ctgaataaga aaatacattt
     4201 ttaaaaccat aacaacatga tttaaaaaga aaatcagcaa aaagttggtt ttgcgtgggg
     4261 tgtggacatt tcagacatga gaacagactc gcgtttttcc ggagtatcag cggaatatct
     4321 gattaaaaaa cactcgccgc agagcgcgat tttatgcaac agcggctgta ctgcacaggg
     4381 attatttatc agttgatatg ctgtgccatg atattgctat tgccgaaagg gacgtcgttt
     4441 tacggcgttt tccctatcct gcatcgcact ggccgcgttc gaatgtttgc gcccctgact
     4501 aaccgctcac tcagctttat cactctcgcc tgcgtcacag ttatcatgct cccatgaaca
     4561 gaaattccct tacacggaga catcagacca gtgaccaaac aggaaaaaac cgccctgaac
     4621 atggcccgct tcatcagaag ccagacatta accctgctgg agaagctcaa c
//
