LOCUS       CP057543                6230 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C06 plasmid pRHB23-C06_5, complete
            sequence.
ACCESSION   CP057543
VERSION     CP057543.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148213
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6230)
  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 6230)
  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                     :: RH12 T2-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 126.333533647315x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:57:35
            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)                     :: 4,801
            CDSs (total)                      :: 4,685
            Genes (coding)                    :: 4,615
            CDSs (with protein)               :: 4,615
            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)              :: 70
            CDSs (without protein)            :: 70
            Pseudo Genes (ambiguous residues) :: 0 of 70
            Pseudo Genes (frameshifted)       :: 31 of 70
            Pseudo Genes (incomplete)         :: 27 of 70
            Pseudo Genes (internal stop)      :: 22 of 70
            Pseudo Genes (multiple problems)  :: 10 of 70
            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..6230
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB23-C06"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C06_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5532..6230,1..1029))
                     /locus_tag="HVX96_23960"
     CDS             complement(join(5532..6230,1..1029))
                     /locus_tag="HVX96_23960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012961.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin"
                     /protein_id="QMJ53559.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            complement(1250..1783)
                     /locus_tag="HVX96_23965"
     CDS             complement(1250..1783)
                     /locus_tag="HVX96_23965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMJ53553.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQNLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVILED
                     KLAEKPVTGKNRKN"
                     /name="hypothetical protein"
     gene            complement(1786..2712)
                     /locus_tag="HVX96_23970"
     CDS             complement(1786..2712)
                     /locus_tag="HVX96_23970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QMJ53554.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKNGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIMEWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2889..3287
                     /locus_tag="HVX96_23975"
     CDS             2889..3287
                     /locus_tag="HVX96_23975"
                     /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="QMJ53555.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQNRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(3548..4567)
                     /locus_tag="HVX96_23980"
     CDS             complement(3548..4567)
                     /locus_tag="HVX96_23980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMJ53556.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(5064..5207)
                     /locus_tag="HVX96_23985"
     CDS             complement(5064..5207)
                     /locus_tag="HVX96_23985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_072020761.1"
                     /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="QMJ53557.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(5269..5529)
                     /locus_tag="HVX96_23990"
     CDS             complement(5269..5529)
                     /locus_tag="HVX96_23990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000412701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="QMJ53558.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     BGC             1..6029
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(3793..4567)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(1790..2712)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctgaacagct ttagcctgtc gttcctggtt tctggcaaca tctttattag cctgatccag
       61 ttctgcgcgg gcctgttcat aattgcgttc agccacttct acaggatgtg tgtcattcca
      121 ttcctgctgg aggcgatttt cctcatcctg acgttgtttt acctgtgcag gggtaagaac
      181 atctgtcact gatacataaa tcggcttctg cccactttct ttcggaaaac ggatcaccgc
      241 ttcatgtgaa ccaccaccaa aggtaaatcc tgcaggaacg gcagtccggc ctttatcctc
      301 cgtaatacca cggggaaggg ttgttgacac cggaaggcct ttgacagtgc tgactgtcag
      361 agaagggaca ccaggaaatg atgcgtgaaa tacacctgga gtacgtgttg gtttggcatt
      421 cacaacaggc acactcatag gcacacctgc aactacggca atatgctgtc gtgtgtcctt
      481 cacaacatct gtcacacgtt tcgtcacgct gacagttgcc tggtccagcg gaagtgtact
      541 gacctgaaca ttcgtcactg tttctgccgg taatgacgtc acaatctttg acatcatatt
      601 cgggtcatct tttgctattt cagatggcag aatgccgtaa agcgcaatac cccatgcgct
      661 gaatttaaac ggacctttca gggctgcaaa gatatcagct attgccgcag ataaagcctc
      721 accagagacg gcgataccca gcgttccggc accaggagtt gccaaagcag gaaaaccaaa
      781 tgccactgct gctacggatg aattgctgcc accaccggaa ttaccattcc ccccgccatt
      841 accattgccg gagccacctc cccagtgaac accactaccg gaaccgccac cccatggatt
      901 attttccgaa ctccatcctg aaccgtcaga agccccacca tttccaccaa gccccgtagg
      961 gccgccatta atgttaccac ctgtgttatg tgcgccactg ttgtggtcgc gtccatctcc
     1021 accgctcata aaaattccct cttttaagcg ttaaaacaat tgattacata gttaatactg
     1081 tacataaaac cactggtttt atgtacagat caaaaagtac tcgccattat tttttctgtc
     1141 aagtcaggga gggatatttt ttggcagttc ggaggaatca ctcatgaaaa cggtgaacgg
     1201 aacgcgaaat cctttcgctg tccgtgaggc gttggacaag cgaagcgcgt cagtttttcc
     1261 ggttcttacc cgtgacaggt ttttccgcca gtttatcttc cagtatcaca actttctgat
     1321 acaccgccgc tgtggcgttg tagttcctgt cgagcattgt tttcattccc catccgagca
     1381 cacagaacat aactagaaaa gccactgaca ccccacccag ccatttccag ctataccctt
     1441 taagggtgtt gtattcctgc acgatattgc tgtgaattgt cgcaatatcc ctgttcaggg
     1501 catccgcgtt tgccttcatg tttgcgactg actcttccag ccgctgaaaa tcctggctga
     1561 tgcgctcacc tatcagccct gctacgtcca gattctgcac ctcatttctg acttcatccc
     1621 tgacctgttt tgccacaccg tcagaaatat cccgatatcc gcgaagtgtt tcccttgcca
     1681 cagccagaga atcagcaaca gctttctgtt gctccattgc ggtatgttgc aaatgctcca
     1741 ccgataacag gagcgtgagt aatttttctt ctgtgctggc catgttcaga atcccataga
     1801 aaatccacgt gacggtgatt taacccgttc aggttcagtt cggtcctgtc tgctcactct
     1861 gtctctcatg tcaaagccat gctcccgcgc aacatcatgt tgcagccttc tgaccagttc
     1921 atgttgctta accggagtgt ccagccattc catgatgtca tgcccgaccg ttcgcgcctg
     1981 ttcaagatgg cgggaatagt ccggttcaga ccgtttttgc atgatgtcat gacgctgggc
     2041 atcatcaagc cgtccggcag cttcaaaacc cagatgcact tcgggacgtc gttcaatgcc
     2101 ctgttctttc agcgtccgac agtcaatgaa gcccctttca aagccatttt ttctcatatg
     2161 ttcgttgtgc ttcacctccc agcgttttcg caattcccgc aactgctctt tttgctgagt
     2221 gggagtcagg cttcctgaat cctttttcgc acctccccgc tcgggatacc tggcgttata
     2281 gcgccggaaa tactgttccg gtgtacgttc aatgccatca ttcacacgct gactcatcat
     2341 gatatgcgca tgaggctgtt cgcctccctc aatgctcgct ttcggattgt gaatggcaaa
     2401 actccatgca tgccgttcgc cagcttcctg acgtacaaaa tcctgcacca gttcaaggcg
     2461 ctgttccggt gtcagttcac ggggcagcgc tatctccagt tcccgataag tcgaaccgtt
     2521 tgcacgttca aactggtcag ccgcctgcca gaaatgtgag ggattatctc gcgcccattc
     2581 cggcatgttt ccgtgtgcgg aatattccaa atcctgacgg tcgcggtatt tctctttgcg
     2641 ctcgatgtaa tcggcgtggt ttgcagcctg ccccttgcca ccaaatttaa cgctgaggtg
     2701 ataggttgcc acggtttcag ccctccgcag gagcgcactg tttctcgacg aaggagagaa
     2761 acatataagt gcgcttcctt ctaattttac gaattagcac ggaagatacc ccctgcaccc
     2821 gccgaccgca agcgatatac tgcacgacca caacacaccg caaaaaaaca ccagggagca
     2881 ccacgaacat gcgcatcagc aacatcgaat ggctgaagaa acggatcgga ttcatcagga
     2941 agctcggaga acagaccgca cgacagagac agattattga cctgctcgac aacgaagcag
     3001 gactcacaga acaggaacgc aaactcctcc acgtactggc aacagcggaa aaaaacgact
     3061 tacaggcaca ggagaacgaa cgaaaacagg cggtccaaaa tcgaatcgag ggaaaaaaac
     3121 aacggcgaga acgcaatcac cgactctttc tcgcggctgg gctactgatc gaagcaggac
     3181 tggtagacac aaaaacaggc gagctatgct ataaaaaaga caggatatta caggcactta
     3241 aggaaattaa gtacgatctg gagacatccc caaacccaga cgcgtaagtg cctccatccg
     3301 tgttccggtt ccctggtgct tcctcgctca ttcgctcgct acgctcggtc atgagactgc
     3361 ggcgagcacg accacctcaa tcatgcggta agccgcacca ttgctgggct gagaggagaa
     3421 aaccgccgga aagcccgctg ctcaaaaaga cgccgaaagg cgctgttatc tgatataggc
     3481 ttgttcatgt ccgcgaattt aacagtccat taacaaaaaa cggggggtag tgttgcttct
     3541 ttgttaacta acatttaatt atttgtttct tggttagcca ttctccagaa ttatccatcc
     3601 agcgtcgaat agtccggctg ctaacaccaa ccgccactgc aatatcttcc gttgacgctc
     3661 ccaagatata catatcaagc gccctacgac gtttgtcgtc gttagcagtc caccgaacag
     3721 cggcgctttt tttccctttg tccgactgat tttctgacga attggccttc ccgcccttgc
     3781 gaccgcgtgc tgcctgaatt tctggcgtgt gcgtatcagc cacatactgt gcgaaagttt
     3841 ccggcgtgaa gttcctgtgc gtgtatttcg caatgctctt gccaatagcc cgacattcag
     3901 ccagtgaaag cggaacggga agcgatgcat tgtacatttc gacacgctgg atcaccgctt
     3961 caagccactg tgagaacgct ggccagccct gacgaatcgc cctgtaagcc catttgcgcg
     4021 tcatttcgaa caggtggcag tttcgcccca tcccgtaatg tttatcgatg ctacgacgct
     4081 ctgaggcgct caaatcgaga taatctgcca gttcatcgag ggtataggcg tcctcgcgcc
     4141 actccatcac ctgccattcc aggtggaacg gatttttgca aatcaggccg ctgtagttca
     4201 catcagcaca aagtttctca cacagcgaac gttcaaccgc tgcggcatat ttcagcgcct
     4261 taaccgaggc atcaggcgcg gttctcacgg cgatgttgag tgcgtagagc aggtgagcgt
     4321 gtccgttcac aggattttta acggtgatgt tcggcgcggg ggcgttccgg tcgctccagt
     4381 caatcgcagc cccctcgcgg tcaacgtcaa aaaccagcca gaactgcgca tgaggctggt
     4441 tctgctggat gtaccgcgca agaagcgcac gccctttgcc ggagatgcga aggccgaaag
     4501 cgagatcatc cgtgtgatag ggacgatggg gtaaattttc gtcgaagtat tgaagcgcgg
     4561 cgctcatgtg ttacgattct ctccgggtta tgcgacctac acgccctctg tatttcatgt
     4621 tgaatcttgc cggatctgga catgatttca ggggcgtttg tttttcagcc gcttacacta
     4681 cacccaacgg caaatcctgt cgatccttcc cgaaaaaccg atccatttac cataactccc
     4741 gttgtacgca ccccttaaaa cgccctcagt cgctttctga cgcaaaaaac gcaaaaagac
     4801 aagaaaacac caggccaaac cagaaaaacg cgccagaatc gtttttagag ggctgcataa
     4861 ctatgcacga aagcgatgcg cgatcgattt cgactgttcc gaagggcgaa caggtcaaaa
     4921 tgacaagttt tctcgccctg ggtggaaagt tctgcacggg gattttagct ctcatctccc
     4981 gcatggaatt tttgtgacat ttcaaaaaaa agcgcatcag aatcagcctg acacgctttg
     5041 tttttgtcaa agaggatttc gggttactgc gttgctaatc cggtcacttc agctgttgat
     5101 gacggggata cagtcccgcc ctgaacatcc cggatatagt ttgcctgaca tgcagccaga
     5161 ataatgactg caagaagcaa taaaataatc cctgttattt ttttcataac gactccttgt
     5221 tgtgaaagaa tgccagccat tcatccataa acaaccggca ttcatatttt agccctgttt
     5281 aaatcctggc ttaccgttag cagctcgcca ttctttaatt tctttaacaa tcccttcagg
     5341 actatcttcc ctgtcatcgc gaggataata aatcagatct gaaccatctg ggtgctcagt
     5401 taatcgctca aactctctca ctaatttatt gtcatcctct tcagtagcac cttcagctct
     5461 acatattttt tttacaaact ccagaaattc agcctcggta taatcactaa tactatgttt
     5521 cagttccatt tttacttacc tctatgaata tcaatatgtc gcttaggtgt ggtcactctg
     5581 atattatcca tatcatagac accaccatcc tgactgattg gtttatcatg atgtaattca
     5641 aagcgttccc taccacctac ttggtctttc ttccttgcaa aaggtgcttt tcccttttga
     5701 atgttcgtct tattactgtc tttaaattgc ttactaagct cgggatcttt tgacacttct
     5761 tcccagaatt tcttccggaa atcgtcaaaa cttttaaatt ctttatcacg caacttatca
     5821 gcaatgcgat caggaattgg cgctcctgaa tctttacccg catcatcaag ccatttatca
     5881 ccaactggtt ttcctttacc cgtcgccttc cctggcttat tccgtttact ctccttatct
     5941 aatttatcct tagagtcctt ttctttattt tccttctgct tacggcgttc cagcgcagca
     6001 cctaacgcag catcagcatc agacttatct tttgcagcag catcaaatgc agccttctta
     6061 ttatttacat ccgtctgtgc ccgctgggcc ttaagccctg ccatttgcca cattcggtga
     6121 ccagcagcca ttggttctcg ggcaaatcgc tcgaattgtt ttatttcagc ctttgcatca
     6181 gcaagagttt tattcgcagc atcaagttca cttttacgag aattataaac
//
