LOCUS       CP057593                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB22-C02 plasmid pRHB22-C02_5, complete
            sequence.
ACCESSION   CP057593
VERSION     CP057593.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148198
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                     :: RH07 T2-C02
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 117.715784775123x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:07:37
            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)                     :: 5,064
            CDSs (total)                      :: 4,941
            Genes (coding)                    :: 4,794
            CDSs (with protein)               :: 4,794
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 147
            CDSs (without protein)            :: 147
            Pseudo Genes (ambiguous residues) :: 0 of 147
            Pseudo Genes (frameshifted)       :: 51 of 147
            Pseudo Genes (incomplete)         :: 84 of 147
            Pseudo Genes (internal stop)      :: 39 of 147
            Pseudo Genes (multiple problems)  :: 24 of 147
            ##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="RHB22-C02"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB22-C02_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3955..4671,1..42))
                     /locus_tag="HVX81_25295"
     CDS             complement(join(3955..4671,1..42))
                     /locus_tag="HVX81_25295"
                     /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="QMK16306.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            296..733
                     /locus_tag="HVX81_25300"
     CDS             296..733
                     /locus_tag="HVX81_25300"
                     /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="QMK16307.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            814..1242
                     /gene="exc2"
                     /locus_tag="HVX81_25305"
     CDS             814..1242
                     /gene="exc2"
                     /locus_tag="HVX81_25305"
                     /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="QMK16308.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            2073..2264
                     /locus_tag="HVX81_25310"
     CDS             2073..2264
                     /locus_tag="HVX81_25310"
                     /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="QMK16309.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3250..3381)
                     /locus_tag="HVX81_25315"
     CDS             complement(3250..3381)
                     /locus_tag="HVX81_25315"
                     /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="QMK16310.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(3393..3872)
                     /locus_tag="HVX81_25320"
     CDS             complement(3393..3872)
                     /locus_tag="HVX81_25320"
                     /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="QMK16311.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     Typing          2431..2978
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atgccacccc ggaccttgat tagaattttc aataccactc atcttaattt cctctttgac
       61 atttaaaaca acgatcaata caactgtata tataaccact ggttttatat acagtttaaa
      121 attacgccgc tgcgttttcc ctgtcaaccc tgtggatttt catttttgtg aaaacggtca
      181 aaaaaacagc cactcacacc atgtgccatc cccgccagat gccacaaaaa ccagcacaaa
      241 cattaccgtt ctccggcctc agtatgtttt actgagacca tgagatgaga cacctatggg
      301 acactgtcac tttatggcat ggcacacact ccgggacgca ctgaaaatga cgggcagatc
      361 gcgttcacag ttttaccgtg atatgcgcgc aggccttgtc agttaccgta caagccagga
      421 cggacgacgg gagtttgaaa ctagtgaact gatccgggca tacggcgaat taaagcggaa
      481 tgagacacca gaaaggcaca cagcgggaca ggcagaaaaa cctcatgatc agcagacaga
      541 acgcattctc cgggagctga acgagctgaa acaatgcctg acgctgatgc ttgaggataa
      601 acaagcccag gatacggagc gccggcgcca ggaagcagaa cgggaacaac tacagaatga
      661 gatagcccag ctcaggcagg cgctggagca ggaaaggaaa cggggattct ggtcccggtt
      721 gtttggtcgc tgaacgctgt cagagactga tgataagata gtcttctgat aataactcac
      781 cgaaaataaa tacattaagg taaggagact cgcatgaaac gttctggcgg cacacgctat
      841 atgtatctta gcgccctgat aactgtgtca gcagccctca cagcctgtac cccaaaaacc
      901 agcctggaac aacatacccg gcattatgtt tatgcttcag atgatgggtt cgatcctaac
      961 ttctacacca agaaagctga caccacacgg atgatgattc cgttctttca gcagttcagg
     1021 gagatggggg tgaaagacaa agcagccgga gtatcagcag aaacggcaca gcaacgcata
     1081 aaagaattcc actctgaaga attccttcag tcactgagaa ccacaaccac ctttgcgggc
     1141 agaaaataca cgaacagtga tatgccatca ccggaaaaaa tgaagctgct ggctgacacg
     1201 atttctgcga tttatctcga tggctacgag ggaagacagt aagtggattt accataatcc
     1261 cttaattgta cgcaccatta aaacgcgttg agcgcgattc tgacgcaggc acagcaaaaa
     1321 gaaatgttta cccccaggaa aaccggaaaa atgcgtcagg atcgttttca gggcgttgca
     1381 tgactatgca cgaaactgaa tagcgatctg tttgggcgca tacggtgccc atgaggcaca
     1441 ttttcggaca ttttcagttc gtgaatccct ggctcattgc tacatatccg ggcagacacc
     1501 cctggcagcg cccccagggg tgttatgtaa aaaaaggcga cgcgccccta ggggcgcccc
     1561 tacattaatt aactgttttt tctacagata gtcagtactg accctaagca gggtcgtcat
     1621 agcgtcgcca tagggtcgtc gacgacgtgc ttttgtataa atctgaataa gaaaatacat
     1681 ttttaaaacc ataacaacat gatttaaaaa gcaaatcagc aaaaagttgg ttttgcgtgg
     1741 ggtgtggaca tttcagacat gagaacagac tcgcgttttt ccggagtatc agcggaatat
     1801 ctgattaaaa aacactcgcc gcagagcgcg attttatgca acagcggctg tactgcacag
     1861 ggattattta tcagttgata tgctgtgcca tgatattgct attgccgaaa gggacgtcgt
     1921 tttacggcgt tttccctatc ctgcatcgca ctggccgcgt tcgaatgttt gcgcccctga
     1981 ctaaccgctc actcagcttt atcactctcg cctgcgtcac agttatcatg ctcccatgaa
     2041 cagaaattcc cttacacgga gacatcagac cagtgaccaa acaggaaaaa accgccctga
     2101 acatggcccg cttcatcaga agccagacat taaccctgct ggagaagctc aacgaactgg
     2161 acgcggatga acaggcagac atctgtgaat cgcttcacga ccacgccgat gagctttacc
     2221 gcagttgcct cgcacgtttc ggggatgacg gtgaaaccct ctgacatatg cagctcccgg
     2281 agacggtcac agcttgtctg tgagcgaatg ccgggagcag acaagcccgt cagggcgcgt
     2341 cagcgggttt tagcgggtgt cggggcgcag ccatgaccca gtcacgtagc gatagcggag
     2401 tgtatactgg cttaatcatg cggcatgtcc ggtgtgaaat gccgcacaga tgcgtaagga
     2461 gaaaatgcca gtataggcgc tcttccgctt cctcgctcac tgactcgcta cgctcggtcg
     2521 ttcggctgcg gcgagcggtg tctactcact caaaagctgt aatacagtta tccacagaat
     2581 caggggataa tgccggaaag aacatgtgag caaaaaggca aaaccaggga aaaaggccgc
     2641 gccgctggcg tttttccata ggctccgccc ccctgacgag catcacaaaa attgacgctc
     2701 aagtcagagg tggcgaaacc cgacaggact ataaagatac caggcgtttc cccctggaag
     2761 ctccctcgtg cgctctcctg ttccgaccct gccacttacc ggatacctgt ccgcctttct
     2821 cccttcggga agcgtggcgc tttctcatag ctcacgctgt tggtatctcg gcttggtgta
     2881 ggtcgttcgc tccaagctgg gctgtgtgca cgaacccccc gttcagcccg accgctgcgc
     2941 cttatccggt aactatcgtc ttgagtccaa cccggtaaga cacgacttaa cgccactggc
     3001 agcagccact ggtagaggat gtacaagaaa ttgctgatac gtagttcttg aagtgaagga
     3061 ccgactgcgg ctacactgaa aggacagatt tggtggcagc ggtcttgtac accctgttac
     3121 ctcgggttag aaagcctgag aaacttctaa ccttcgaaag aacccacgcc tgagaacgtg
     3181 ggttttttcg tttacaggca gcagattacg cgtagaaaaa aaggatctca agaagatcct
     3241 ttaatctttt tacctaattt cgattccagt agctgctgag ctagaagatg gcgcaacagt
     3301 ccctccttga acatccctga tataatttgc ctgacagccg ggcaatatta aaattagcgc
     3361 acaaaaaacc aaaccacgca tagaattgta ttttatctcc ccataacaat gatcatatca
     3421 attgataaca aaccatttga ctttattttc tcaggaaata aaagtgacgg atcgttatca
     3481 acaatacttt gtatttctct atacagtttt ttacagtcta atgatgagtt ttccgccaat
     3541 gagtttaaca aaacaacatc tggaggctca atatctttaa cacctgtact tcctgttgtt
     3601 atcgataatt tacaaactcc cttcccatta aagttaatta gttttttctg gatataatct
     3661 cgatataccc ctaactcctt cctaataggt tctacatatg cttgatcgat gacatggtta
     3721 ttactattta tatcatcaat atatttatat atctcattaa ctgaatctgt attcctttcc
     3781 caacttggag caatgaatac tgttacagat gcataagcac cttctgataa gaacaataaa
     3841 gcaacatata agaataataa ccgcttgatc atataatcca ttcccattat aggttgatgt
     3901 atttcatctt taatataaga tgaaatacat ctcatatcta tatgttatgg tctattaatg
     3961 tttatcccgc aactgatctg ctgtatcctt gtttctctga tcgcctcgtt gatgaagatt
     4021 tcgatggctt tcacgtgctg cagactccca atccccacgg ttcacagcag cattaaagtt
     4081 cggaaagttt ctcgatagct taggaattcc taagttaaat cccatatcca ctaaggcagt
     4141 ttttctagag ttagaaaaac catcataacc agaatataaa gaacgcaagc ctttctctgt
     4201 agtctgaaca tcggaaatac ataatccaat aacagcatca tttgataaat gcaagttcat
     4261 tggtacttgt ctagagtctt ttttaaagtt attaaaagca tcggttattt ctttttttga
     4321 tgctgcaact tctttttcca tatcatcacc atgaccatgc catgtatgag ttcttgtaaa
     4381 agggagagat gccgccatat ctggcgtaga tagcaaatga ccaataccaa cagtaatatt
     4441 accttcgcta tccttataca tggtgttttt gaacccctca tgggctttta aattattaac
     4501 acacatgctc atatagtagc cattatagtt tctggtagat ggtatactaa tatgtgtctt
     4561 atcagaaata ccttcatggc gatttccccc attaccacca gaatgagcac cataaccgct
     4621 atggctgtcc ccatcataac tatgaattgt tccataggga gtattgtgat c
//
