LOCUS       CP058095                6230 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB01-C09 plasmid pRHB01-C09_3, complete
            sequence.
ACCESSION   CP058095
VERSION     CP058095.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147953
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                     :: RH11 T1-C09
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 90.9454302587345x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 14:43:09
            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)                     :: 4,860
            CDSs (total)                      :: 4,741
            Genes (coding)                    :: 4,643
            CDSs (with protein)               :: 4,643
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 98
            CDSs (without protein)            :: 98
            Pseudo Genes (ambiguous residues) :: 0 of 98
            Pseudo Genes (frameshifted)       :: 48 of 98
            Pseudo Genes (incomplete)         :: 42 of 98
            Pseudo Genes (internal stop)      :: 23 of 98
            Pseudo Genes (multiple problems)  :: 15 of 98
            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="RHB01-C09"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB01-C09_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5447..6230,1..236))
                     /locus_tag="HVV36_24185"
     CDS             complement(join(5447..6230,1..236))
                     /locus_tag="HVV36_24185"
                     /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="QMR28336.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(733..876)
                     /locus_tag="HVV36_24190"
     CDS             complement(733..876)
                     /locus_tag="HVV36_24190"
                     /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="QMR28337.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(938..1198)
                     /locus_tag="HVV36_24195"
     CDS             complement(938..1198)
                     /locus_tag="HVV36_24195"
                     /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="QMR28338.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     gene            complement(1201..2928)
                     /locus_tag="HVV36_24200"
     CDS             complement(1201..2928)
                     /locus_tag="HVV36_24200"
                     /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="QMR28339.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKGKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            complement(3149..3682)
                     /locus_tag="HVV36_24205"
     CDS             complement(3149..3682)
                     /locus_tag="HVV36_24205"
                     /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="QMR28340.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3685..4611)
                     /locus_tag="HVV36_24210"
     CDS             complement(3685..4611)
                     /locus_tag="HVV36_24210"
                     /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="QMR28341.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFETAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREYGFD
                     MRDGVSRQERTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            4788..5186
                     /locus_tag="HVV36_24215"
     CDS             4788..5186
                     /locus_tag="HVV36_24215"
                     /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="QMR28342.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     BGC             1..6230
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(5707..6229)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.046"
                     /coverage="92.0"
                     /evalue="0.0"
     Typing          complement(3689..4611)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.403"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggatttttaa cggtgatgtt cggcgcgggg gcgttccggt cgctccagtc aatcgcagcc
       61 ccctcgcggt caacgtcaaa aaccagccag aactgcgcat gaggctggtt ctgctggatg
      121 taccgcgcaa gaagcgcacg ccctttgccg gagatgcgaa ggccgaaagc gagatcatcc
      181 gtgtgatagg gacgatgggg taaattttcg tcgaagtatt gaagcgcggc gctcatgtgt
      241 tacgattctc tccgggttat gcgacctaca cgccctctgt atttcatgtt gaatcttgcc
      301 ggatctggac atgatttcag gggcgtttgt ttttcagtcg cttacactac acccaacggc
      361 aaatcctgtc gatccttccc gcaaaaccga tccatttacc ataactcccg ttgtacgcac
      421 cccttaaaac gccctcagtc gctttctgac gcaaaaaacg caaaaagaca agaaaacacc
      481 aagccaaacc agaaaaacgc gccagaatcg tttttagagg gctgcataac tatgcacgaa
      541 agcgatgcgc gatcgatttc gactgttccg aagggcgaac aggtcaaaat gacaagtttt
      601 ctcgcccggg gtggaaagtt ctgcacgggg attttagctc tcatctcccg catggaattt
      661 ttgtgacatt tcaaaaaaaa gcgcatcaga atcagcctga cacgctttgt ttttgtcaaa
      721 gaggatttcg ggttactgcg ttgctaatcc ggtcacttca gctgttgatg acggggatac
      781 agtcccgccc tgaacatccc ggatatagtt tgcctgacat gcagccagaa taatgactgc
      841 aagaagcaat aaaataatcc ctgttatttt tttcataacg actccttgtt gtgaaagaat
      901 gccagccatt catccataaa caaccggcat tcatatttta gccctgttta aatcctggct
      961 taccgttagc agctcgccat tctttaattt ctttaacaat cccttcagga ctatcttccc
     1021 tgtcatcgcg aggataataa atcagatctg aaccatctgg gtgctcagtt aatcgctcaa
     1081 actctctcac taatttattg tcatcctctt cagtagcacc ttcagctcta catatttttt
     1141 ttacaaactc cagaaattca gcctcggtat aatcactaat actatgtttc agttccattt
     1201 ttacttacct ctatgaatat caatatgtcg cttaggtgtg gtcactctga tattatccat
     1261 atcatagaca ccaccatcct gactgattgg tttatcatga tgtaattcaa agcgttccct
     1321 accacctact tggtctttct tccttgcaaa aggtgctttt cccttttgaa tgttcgtctt
     1381 attactgtct ttaaattgct tactaagctc gggatctttt gacacttctt cccagaattt
     1441 cttccggaaa tcgtcaaaac ttttaaattc tttatcacgc aacttatcag caatgcgatc
     1501 aggaattggc gctcctgaat ctttacccgc atcatcaagc catttatcac caactggttt
     1561 tcctttaccc gtcgccttcc ctggcttatt ccgtttactc tccttatcta atttaccctt
     1621 agagtccttt tctttatttt ccttctgctt acggcgttcc agcgcagcac ctaacgcagc
     1681 atcagcatca gacttatctt ttgcagcagc atcaaatgca gccttcttat tatttacatc
     1741 cgtctgtgcc cgctgggcct taagccctgc catttgccac attcggtgac cagcagccat
     1801 tggttctcgg gcaaatcgct cgaattgttt tatttcagcc tttgcatcag caagagtttt
     1861 attcgcagca tcaagttcac ttttacgaga attataaacc tgaacagctt tagcctgtcg
     1921 ttcctggttt ctggcaacat ctttattagc ctgatccagt tctgcgcggg cctgttcata
     1981 attgcgttca gccacttcta caggatgtgt gtcattccat tcctgctgga ggcgattttc
     2041 ctcatcctga cgttgtttta cctgtgcagg ggtaagaaca tctgtcactg atacataaat
     2101 cggcttctgc ccactttctt tcgggaaacg gatcaccgct tcatgtgaac caccaccaaa
     2161 ggtaaatcct gcaggaacgg cagtccggcc tttatcctcc gtaataccac ggggaagggt
     2221 tgttgacacc ggaaggcctt tgacagtgct gactgtcaga gaagggacac caggaaatga
     2281 tgcgtgaaat acacctggag tacgtgttgg tttggcattc acaacaggca cactcatagg
     2341 cacacctgca actacggcaa tatgctgtcg tgtgtccttc acaacatctg tcacacgttt
     2401 cgtcacgctg acagttgcct ggtccagcgg aagtgtactg acctgaacat tcgtcactgt
     2461 ttctgccggt aatgacgtca caatctttga catcatattc gggtcatctt ttgctatttc
     2521 agatggcaga atgccgtaaa gcgcaatacc ccatgcgctg aatttaaacg gacctttcag
     2581 ggctgcaaag atatcagcta ttgccgcaga taaagcctca ccagagacgg cgatacccag
     2641 cgttccggca ccaggagttg ccaaagcagg aaaaccaaat gccactgctg ctacggatga
     2701 attgctgcca ccaccggaat taccattccc cccgccatta ccattgccgg agccacctcc
     2761 ccagtgaaca ccactaccgg aaccgccacc ccatggatta ttttccgaac tccatcctga
     2821 accgtcagaa gccccaccat ttccaccaag ccccgtaggg ccgccattaa tgttaccacc
     2881 tgtgttatgt gcgccactgt tgtggtcgcg tccatctcca ccgctcataa aaattccctc
     2941 ttttaagcgt taaaacaatt gattacatag ttaatactgt acataaaacc actggtttta
     3001 tgtacagatc aaaaagtact cgccattatt ttttctgtca agtcaggggg ggatattttt
     3061 tggcagttcg gaggaatcac tcatgaaaac ggtgaacgga acgcgaaatc ctttcgcggg
     3121 tcgtgaggcg ttggacaagc gaagcgcgtc agtttttccg gctcttaccc gtgacaggtt
     3181 tctccaccag tttatcttcc agtgtcacaa ctttctgata caccgccgct gtggcgttgt
     3241 agttcctgtc gagtattgtt ttcattcccc atccgagcac acagaacata accagaaaag
     3301 ccactgacac cccacccagc catttccagc tatacccttt aagggtgttg tattcctgca
     3361 cgatattgct gtgaattgtc gcaatatccc tgttcagggc atccgcgttt gccttcatgt
     3421 ttgcgactga ctcttccagc cgctgaaaat cctggctgat gcgctcacct atcagtcctg
     3481 ccacgtccag cttctgcacc tcatttctga cttcatccct gacctgtttt gccacaccgt
     3541 cagaaatatc ccgatatccg cgaagtgttt cccttgccac agccagagaa tcagcaacag
     3601 ctttctgttg ctccattgcg gtatgttgca gatgctccac cgataacagg agcgtgagta
     3661 atttttcttc tgtgctggcc atgttcagaa tcccatagaa aatccacgtg acggtgattt
     3721 aacccgttca ggttcagttc gctcctgtct gctcactccg tctctcatgt caaagccata
     3781 ctcccgcgca acatcatgtt gcagccttct gaccagttca tgttgcttaa ccggagtgtc
     3841 cagccattcc ctgatgtcat gcccgaccgt tcgcgcctgt tcaagatggc gggaatagtc
     3901 cggttcagac cgtttttgca tgatgtcatg acgctgggca tcatcaagcc gtccggcagt
     3961 ttcaaaaccc agatgcactt caggacgtcg ttcaatgccc tgttctttca gcgtccggca
     4021 gtcaatgaag cccctttcaa agccatgctt tctcatatgt tcgttgtgct tcacctccca
     4081 gcgttttcgc aattcccgca actgctcttt ttgctgagtg ggagtcaggc ttcctgaatc
     4141 ctttttcgca cctccccgct cgggatacct ggcgttatag cgccggaaat actgttccgg
     4201 tgtacgttca atgccatcat tcacacgctg actcatcatg atatgcgcat gaggctgttc
     4261 gcctccctca atgctcgctt tcggattgtg aatggcaaaa ctccatgcat gccgttcgcc
     4321 agcttcctga cgtacaaaat cctgcaccag ttcaaggcgc tgttccggtg tcagttcacg
     4381 gggcagcgct atctccagtt cccgataagt cgaaccgttt gcacgttcaa actggtcagc
     4441 cgcctgccag aaatgtgagg gattatctcg cgcccattcc ggcatgtttc cgtgtgcgga
     4501 atattccaaa tcctgacggt cgcggtattt ctctttgcgc tcgatgtaat cggcgtggtt
     4561 tgcagcctgc cccttgccac caaatttaac gctgaggtga taggttgcca cggtttcagc
     4621 cctccgcagg agcgcactgt ttctcgacga aggagagaaa catataagtg cgcttccttc
     4681 taattttacg aattagcacg gaagataccc cctgcacccg ccgaccgcaa gcgatatact
     4741 gcacgaccac aacacaccgc aaaaaaacac cagggagcac cacgaacatg cgcatcagca
     4801 acatcgaatg gctgaagaaa cggatcggat tcatcaggaa gctcggagaa cagaccgcac
     4861 gacagagaca gattattgac ctgctcgaca acgaagcagg actcacagaa caggaacgca
     4921 aactcctcca cgtactggca acagcggaaa aaaacgactt acaggcacag gagaacgaac
     4981 gaaaacaggc ggtccaaaaa cgaatcgagg gaaaaaaaca acgacgagaa cgcaatcacc
     5041 gactctttct cgcggctggg ctactgatcg aagcaggact ggtagacaca aaaacaggcg
     5101 agctatgcta taaaaaagac aggatattac aggcacttaa ggaaattaag tacgatctgg
     5161 agacatcccc aaacccagac gcgtaagtgc ctccatccgt gttccggttc cctggtgctt
     5221 cctcgctcat tcgctcgcta cgctcggtca tgagactgcg gcgagcacga ccacctcaat
     5281 catgcggtaa gccgcaccat tgctgggctg agaggagaaa accgccggaa agcccgctgc
     5341 tcaaaaagac gccgaaaggc gctgttatct gatataggct tgttcatgtc cgcgaattta
     5401 acatcccatt aacaaaaaac ggggggtagt gttgcttctt tgttaactaa catttaatta
     5461 tttgtttctt ggttagccat tctccagaat tatccatcca gcgtcgaata gtccggctgc
     5521 taacaccaac cgccactgca atatcttccg ttgacgctcc caagatatac atatcaagcg
     5581 ccctacgacg tttgtcgtcg ttagcagtcc accgaacagc ggcgcttttt ttccctttgt
     5641 ccgactgatt ttctgacgaa ttggccttcc cgcccttgcg accgcgtgct gcctgaattt
     5701 ctggcgtgtg cgtatcagcc acatactgtg cgaaagtttc cggcgtgaag ttcctgtgcg
     5761 tgtatttcgc aatgctcttg ccaatagccc gacattcagc cagtgaaagc ggaacgggaa
     5821 gcgatgcatt gtacatttcg acacgctgga tcaccgcttc aagccactgt gagaacgctg
     5881 gccagccctg acgaatcgcc ctgtaagccc atttgcgcgt catttcgaac aggtggcagt
     5941 ttcgccccat cccgtaatgt ttatcgatgc tacgacgctc tgaggcgctc aaatcgagat
     6001 aatctgccag ttcatcgagg gtataggcgt cctcgcgcca ctccatcacc tgccattcca
     6061 ggtggaacgg atttttgcaa atcaggccgc tgtagttcac atcagcacaa agtttctcac
     6121 acagcgaacg ttcaaccgct gcggcatatt tcagcgcctt aaccgaggca tcaggcgcgg
     6181 ttctcacggc gatgttgagt gcgtagagca ggtgagcgtg tccgttcaca
//
