LOCUS       CP057061                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB39-C17 plasmid pRHB39-C17_5, complete
            sequence.
ACCESSION   CP057061
VERSION     CP057061.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148401
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                     :: RH09 T3-C17
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 139.070910496949x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 05:49:08
            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)                     :: 5,046
            CDSs (total)                      :: 4,923
            Genes (coding)                    :: 4,761
            CDSs (with protein)               :: 4,761
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 54 of 162
            Pseudo Genes (incomplete)         :: 103 of 162
            Pseudo Genes (internal stop)      :: 30 of 162
            Pseudo Genes (multiple problems)  :: 21 of 162
            ##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="RHB39-C17"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB39-C17_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(509..640)
                     /locus_tag="HVZ84_25205"
     CDS             complement(509..640)
                     /locus_tag="HVZ84_25205"
                     /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="QMC23193.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(652..1131)
                     /locus_tag="HVZ84_25210"
     CDS             complement(652..1131)
                     /locus_tag="HVZ84_25210"
                     /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="QMC23194.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(1214..1972)
                     /locus_tag="HVZ84_25215"
     CDS             complement(1214..1972)
                     /locus_tag="HVZ84_25215"
                     /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="QMC23195.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            2226..2663
                     /locus_tag="HVZ84_25220"
     CDS             2226..2663
                     /locus_tag="HVZ84_25220"
                     /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="QMC23196.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            2744..3172
                     /gene="exc2"
                     /locus_tag="HVZ84_25225"
     CDS             2744..3172
                     /gene="exc2"
                     /locus_tag="HVZ84_25225"
                     /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="QMC23197.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            4003..4194
                     /locus_tag="HVZ84_25230"
     CDS             4003..4194
                     /locus_tag="HVZ84_25230"
                     /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="QMC23198.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2..273
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.238"
                     /coverage="82.0"
                     /evalue="1.17e-118"
     Typing          4370..4671
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.869"
                     /coverage="100.0"
                     /evalue="3.16e-95"
ORIGIN
        1 aggcgtttcc ccctggaagc tccctcgtgc gctctcctgt tccgaccctg ccacttaccg
       61 gatacctgtc cgcctttctc ccttcgggaa gcgtggcgct ttctcatagc tcacgctgtt
      121 ggtatctcgg cttggtgtag gtcgttcgct ccaagctggg ctgtgtgcac gaaccccccg
      181 ttcagcccga ccgctgcgcc ttatccggta actatcgtct tgagtccaac ccggtaagac
      241 acgacttaac gccactggca gcagccactg gtagaggatg tacaagaaat tgctgatacg
      301 tagttcttga agtgaaggac cgactgcggc tacactgaaa ggacagattt ggtggcagcg
      361 gtcttgtaca ccctgttacc tcgggttaga aagcctgaga aacttctaac cttcgaaaga
      421 acccacgcct gagaacgtgg gttttttcgt ttacaggcag cagattacgc gtagaaaaaa
      481 aggatctcaa gaagatcctt taatcttttt acctaatttc gattccagta gctgctgagc
      541 tagaagatgg cgcaacagtc cctccttgaa catccctgat ataatttgcc tgacagccgg
      601 gcaatattaa aattagcgca caaaaaacca aaccacgcat agaattgtat tttatctccc
      661 cataacaatg atcatatcaa ttgataacaa accatttgac tttattttct caggaaataa
      721 aagtgacgga tcgttatcaa caatactttg tatttctcta tacagttttt tacagtctaa
      781 tgatgagttt tccgccaatg agtttaacaa aacaacatct ggaggctcaa tatctttaac
      841 acctgtactt cctgttgtta tcgataattt acaaactccc ttcccattaa agttaattag
      901 ttttttctgg atataatctc gatatacccc taactccttc ctaataggtt ctacatatgc
      961 ttgatcgatg acatggttat tactatttat atcatcaata tatttatata tctcattaac
     1021 tgaatctgta ttcctttccc aacttggagc aatgaatact gttacagatg cataagcacc
     1081 ttctgataag aacaataaag caacatataa gaataataac cgcttgatca tataatccat
     1141 tcccattata ggttgatgta tttcatcttt aatataagat gaaatacatc tcatatctat
     1201 atgttatggt ctattaatgt ttatcccgca actgatctgc tgtatccttg tttctctgat
     1261 cgcctcgttg atgaagattt cgatggcttt cacgtgctgc agactcccaa tccccacggt
     1321 tcacagcagc attaaagttc ggaaagtttc tcgatagctt aggaattcct aagttaaatc
     1381 ccatatccac taaggcagtt tttctagagt tagaaaaacc atcataacca gaatataaag
     1441 aacgcaagcc tttctctgta gtctgaacat cggaaataca taatccaata acagcatcat
     1501 ttgataaatg caagttcatt ggtacttgtc tagagtcttt tttaaagtta ttaaaagcat
     1561 cggttatttc tttttttgat gctgcaactt ctttttccat atcatcacca tgaccatgcc
     1621 atgtatgagt tcttgtaaaa gggagagatg ccgccatatc tggcgtagat agcaaatgac
     1681 caataccaac agtaatatta ccttcgctat ccttatacat ggtgtttttg aacccctcat
     1741 gggcttttaa attattaaca cacatgctca tatagtagcc attatagttt ctggtagatg
     1801 gtatactaat atgtgtctta tcagaaatac cttcatggcg atttccccca ttaccaccag
     1861 aatgagcacc ataaccgcta tggctgtccc catcataact atgaattgtt ccatagggag
     1921 tattgtgatc atgccacccc ggaccttgat tagaattttc aataccactc atcttaattt
     1981 cctctttgac atttaaaaca acgatcaata caactgtata tataaccact ggttttatat
     2041 acagtttaaa attacgccgc tgcgttttcc ctgtcaaccc tgtggatttt catttttgtg
     2101 aaaacggtca aaaaaacagc cactcacacc atgtgccatc cccgccagat gccacaaaaa
     2161 ccagcacaaa cattaccgtt ctccggcctc agtatgtttt actgagacca tgagatgaga
     2221 cacctatggg acactgtcac tttatggcat ggcacacact ccgggacgca ctgaaaatga
     2281 cgggcagatc gcgttcacag ttttaccgtg atatgcgcgc aggccttgtc agttaccgta
     2341 caagccagga cggacgacgg gagtttgaaa ctagtgaact gatccgggca tacggcgaat
     2401 taaagcggaa tgagacacca gaaaggcaca cagcgggaca ggcagaaaaa cctcatgatc
     2461 agcagacaga acgcattctc cgggagctga acgagctgaa acaatgcctg acgctgatgc
     2521 ttgaggataa acaagcccag gatacggagc gccggcgcca ggaagcagaa cgggaacaac
     2581 tacagaatga gatagcccag ctcaggcagg cgctggagca ggaaaggaaa cggggattct
     2641 ggtcccggtt gtttggtcgc tgaacgctgt cagagactga tgataagata gtcttctgat
     2701 aataactcac cgaaaataaa tacattaagg taaggagact cgcatgaaac gttctggcgg
     2761 cacacgctat atgtatctta gcgccctgat aactgtgtca gcagccctca cagcctgtac
     2821 cccaaaaacc agcctggaac aacatacccg gcattatgtt tatgcttcag atgatgggtt
     2881 cgatcctaac ttctacacca agaaagctga caccacacgg atgatgattc cgttctttca
     2941 gcagttcagg gagatggggg tgaaagacaa agcagccgga gtatcagcag aaacggcaca
     3001 gcaacgcata aaagaattcc actctgaaga attccttcag tcactgagaa ccacaaccac
     3061 ctttgcgggc agaaaataca cgaacagtga tatgccatca ccggaaaaaa tgaagctgct
     3121 ggctgacacg atttctgcga tttatctcga tggctacgag ggaagacagt aagtggattt
     3181 accataatcc cttaattgta cgcaccatta aaacgcgttg agcgcgattc tgacgcaggc
     3241 acagcaaaaa gaaatgttta cccccaggaa aaccggaaaa atgcgtcagg atcgttttca
     3301 gggcgttgca tgactatgca cgaaactgaa tagcgatctg tttgggcgca tacggtgccc
     3361 atgaggcaca ttttcggaca ttttcagttc gtgaatccct ggctcattgc tacatatccg
     3421 ggcagacacc cctggcagcg cccccagggg tgttatgtaa aaaaaggcga cgcgccccta
     3481 ggggcgcccc tacattaatt aactgttttt tctacagata gtcagtactg accctaagca
     3541 gggtcgtcat agcgtcgcca tagggtcgtc gacgacgtgc ttttgtataa atctgaataa
     3601 gaaaatacat ttttaaaacc ataacaacat gatttaaaaa gaaaatcagc aaaaagttgg
     3661 ttttgcgtgg ggtgtggaca tttcagacat gagaacagac tcgcgttttt ccggagtatc
     3721 agcggaatat ctgattaaaa aacactcgcc gcagagcgcg attttatgca acagcggctg
     3781 tactgcacag ggattattta tcagttgata tgctgtgcca tgatattgct attgccgaaa
     3841 gggacgtcgt tttacggcgt tttccctatc ctgcatcgca ctggccgcgt tcgaatgttt
     3901 gcgcccctga ctaaccgctc actcagcttt atcactctcg cctgcgtcac agttatcatg
     3961 ctcccatgaa cagaaattcc cttacacgga gacatcagac cagtgaccaa acaggaaaaa
     4021 accgccctga acatggcccg cttcatcaga agccagacat taaccctgct ggagaagctc
     4081 aacgaactgg acgcggatga acaggcagac atctgtgaat cgcttcacga ccacgccgat
     4141 gagctttacc gcagttgcct cgcacgtttc ggggatgacg gtgaaaccct ctgacatatg
     4201 cagctcccgg agacggtcac agcttgtctg tgagcgaatg ccgggagcag acaagcccgt
     4261 cagggcgcgt cagcgggttt tagcgggtgt cggggcgcag ccatgaccca gtcacgtagc
     4321 gatagcggag tgtatactgg cttaatcatg cggcatgtcc ggtgtgaaat gccgcacaga
     4381 tgcgtaagga gaaaatgcca gtataggcgc tcttccgctt cctcgctcac tgactcgcta
     4441 cgctcggtcg ttcggctgcg gcgagcggtg tctactcact caaaagctgt aatacagtta
     4501 tccacagaat caggggataa tgccggaaag aacatgtgag caaaaaggca aaaccagggc
     4561 aaaaggccgc gccgctggcg tttttccata ggctccgccc ccctgacgag catcacaaaa
     4621 attgacgctc aagtcagagg tggcgaaacc cgacaggact ataaagatac c
//
