LOCUS       CP058000                6230 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB06-C03 plasmid pRHB06-C03_5, complete
            sequence.
ACCESSION   CP058000
VERSION     CP058000.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148008
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                     :: RH14 T1-C03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 89.5791523127404x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:55:21
            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)                     :: 4,950
            CDSs (total)                      :: 4,831
            Genes (coding)                    :: 4,722
            CDSs (with protein)               :: 4,722
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 109
            CDSs (without protein)            :: 109
            Pseudo Genes (ambiguous residues) :: 0 of 109
            Pseudo Genes (frameshifted)       :: 51 of 109
            Pseudo Genes (incomplete)         :: 40 of 109
            Pseudo Genes (internal stop)      :: 32 of 109
            Pseudo Genes (multiple problems)  :: 14 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..6230
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB06-C03"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB06-C03_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            267..1286
                     /locus_tag="HVV91_24695"
     CDS             267..1286
                     /locus_tag="HVV91_24695"
                     /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="QMQ11811.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(1547..1945)
                     /locus_tag="HVV91_24700"
     CDS             complement(1547..1945)
                     /locus_tag="HVV91_24700"
                     /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="QMQ11812.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQNRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            2122..3048
                     /locus_tag="HVV91_24705"
     CDS             2122..3048
                     /locus_tag="HVV91_24705"
                     /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="QMQ11813.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTLEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKNGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIMEWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQDRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            3051..3584
                     /locus_tag="HVV91_24710"
     CDS             3051..3584
                     /locus_tag="HVV91_24710"
                     /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="QMQ11814.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQNLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVILED
                     KLAEKPVTGKNRKN"
                     /name="hypothetical protein"
     gene            3805..5532
                     /locus_tag="HVV91_24715"
     CDS             3805..5532
                     /locus_tag="HVV91_24715"
                     /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="QMQ11815.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            5535..5795
                     /locus_tag="HVV91_24720"
     CDS             5535..5795
                     /locus_tag="HVV91_24720"
                     /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="QMQ11816.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     gene            5857..6000
                     /locus_tag="HVV91_24725"
     CDS             5857..6000
                     /locus_tag="HVV91_24725"
                     /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="QMQ11817.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     BGC             1..6230
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          268..1042
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          2123..3045
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcgcgttttt ctggtttggc ctggtgtttt cttgtctttt tgcgtttttt gcgtcagaaa
       61 gcgactgagg gcgttttaag gggtacgtac aacgggagtt atggtaaatg gatcggtttt
      121 tcgggaagga tcgacaggat ttgccgttgg gtgtagtgta agcggctgaa aaacaaacgc
      181 ccctgaaatc atgtccagat ccggcaagat tcaacatgaa atacagaggg cgtgtaggtc
      241 gcataacccg gagagaatcg taacacatga gcgccgcgct tcaatacttc gacgaaaatt
      301 taccccatcg tccctatcac acggatgatc tcgctttcgg ccttcgcatc tccggcaaag
      361 ggcgtgcgct tcttgcgcgg tacatccagc agaaccagcc tcatgcgcag ttctggctgg
      421 tttttgacgt tgaccgcgag ggggctgcga ttgactggag cgaccggaac gcccccgcgc
      481 cgaacatcac cgttaaaaat cctgtgaacg gacacgctca cctgctctac gcactcaaca
      541 tcgccgtgag aaccgcgcct gatgcctcgg ttaaggcgct gaaatatgcc gcagcggttg
      601 aacgttcgct gtgtgagaaa ctttgtgctg atgtgaacta cagcggcctg atttgcaaaa
      661 atccgttcca cctggaatgg caggtgatgg agtggcgcga ggacgcctat accctcgatg
      721 aactggcaga ttatctcgat ttgagcgcct cagagcgtcg tagcatcgat aaacattacg
      781 ggatggggcg aaactgccac ctgttcgaaa tgacgcgcaa atgggcttac agggcgattc
      841 gtcagggctg gccagcgttc tcacagtggc ttgaagcggt gatccagcgt gtcgaaatgt
      901 acaatgcatc gcttcccgtt ccgctttcac tggctgaatg tcgggctatt ggcaagagca
      961 ttgcgaaata cacgcacagg aacttcacgc cggaaacttt cgcacagtat gtggctgata
     1021 cgcacacgcc agaaattcag gcagcacgcg gtcgcaaggg cgggaaggcc aattcgtcag
     1081 aaaatcagtc ggacaaaggg aaaaaaagcg ccgctgttcg gtggactgct aacgacgaca
     1141 aacgtcgtag ggcgcttgat atgtatatct tgggagcgtc aacggaagat attgcagtgg
     1201 cggttggtgt tagcagccgg actattcgac gctggatgga taattctgga gaatggctaa
     1261 ccaagaaaca aataattaaa tgttagttaa caaagaagca acactacccc ccgttttttg
     1321 ttaatggact gttaaattcg cggacatgaa caagcctata tcagataaca gcgcctttcg
     1381 gcgtcttttt gagcagcggg ctttccggcg gttttctcct ctcagcccag caatggtgcg
     1441 gcttaccgca tgattgaggt ggtcgtgctc gccgcagtct catgaccgag cgtagcgagc
     1501 gaatgagcga ggaagcacca gggaaccgga acacggatgg aggcacttac gcgtctgggt
     1561 ttggggatgt ctccagatcg tacttaattt ccttaagtgc ctgtaatatc ctgtcttttt
     1621 tatagcatag ctcgcctgtt tttgtgtcta ccagtcctgc ttcgatcagt agcccagccg
     1681 cgagaaagag tcggtgattg cgttctcgcc gttgtttttt tccctcgatt cgattttgga
     1741 ccgcctgttt tcgttcgttc tcctgtgcct gtaagtcgtt tttttccgct gttgccagta
     1801 cgtggaggag tttgcgttcc tgttctgtga gtcctgcttc gttgtcgagc aggtcaataa
     1861 tctgtctctg tcgtgcggtc tgttctccga gcttcctgat gaatccgatc cgtttcttca
     1921 gccattcgat gttgctgatg cgcatgttcg tggtgctccc tggtgttttt ttgcggtgtg
     1981 ttgtggtcgt gcagtatatc gcttgcggtc ggcgggtgca gggggtatct tccgtgctaa
     2041 ttcgtaaaat tagaaggaag cgcacttata tgtttctctc cttcgtcgag aaacagtgcg
     2101 ctcctgcgga gggctgaaac cgtggcaacc tatcacctca gcgttaaatt tggtggcaag
     2161 gggcaggctg caaaccacgc cgattacatc gagcgcaaag agaaataccg cgaccgtcag
     2221 gatttggaat attccgcaca cggaaacatg ccggaatggg cgcgagataa tccctcacat
     2281 ttctggcagg cggctgacca gtttgaacgt gcaaacggtt cgacttatcg ggaactggag
     2341 atagcgctgc cccgtgaact gacactggaa cagcgccttg aactggtgca ggattttgta
     2401 cgtcaggaag ctggcgaacg gcatgcatgg agttttgcca ttcacaatcc gaaagcgagc
     2461 attgagggag gcgaacagcc tcatgcgcat atcatgatga gtcagcgtgt gaatgatggc
     2521 attgaacgta caccggaaca gtatttccgg cgctataacg ccaggtatcc cgagcgggga
     2581 ggtgcgaaaa aggattcagg aagcctgact cccactcagc aaaaagagca gttgcgggaa
     2641 ttgcgaaaac gctgggaggt gaagcacaac gaacatatga gaaaaaatgg ctttgaaagg
     2701 ggcttcattg actgtcggac gctgaaagaa cagggcattg aacgacgtcc cgaagtgcat
     2761 ctgggttttg aagctgccgg acggcttgat gatgcccagc gtcatgacat catgcaaaaa
     2821 cggtctgaac cggactattc ccgccatctt gaacaggcgc gaacggtcgg gcatgacatc
     2881 atggaatggc tggacactcc ggttaagcaa catgaactgg tcagaaggct gcaacatgat
     2941 gttgcgcggg agcatggctt tgacatgaga gacagagtga gcagacagga ccgaactgaa
     3001 cctgaacggg ttaaatcacc gtcacgtgga ttttctatgg gattctgaac atggccagca
     3061 cagaagaaaa attactcacg ctcctgttat cggtggagca tttgcaacat accgcaatgg
     3121 agcaacagaa agctgttgct gattctctgg ctgtggcaag ggaaacactt cgcggatatc
     3181 gggatatttc tgacggtgtg gcaaaacagg tcagggatga agtcagaaat gaggtgcaga
     3241 atctggacgt agcagggctg ataggtgagc gcatcagcca ggattttcag cggctggaag
     3301 agtcagtcgc aaacatgaag gcaaacgcgg atgccctgaa cagggatatt gcgacaattc
     3361 acagcaatat cgtgcaggaa tacaacaccc ttaaagggta tagctggaaa tggctgggtg
     3421 gggtgtcagt ggcttttcta gttatgttct gtgtgctcgg atggggaatg aaaacaatgc
     3481 tcgacaggaa ctacaacgcc acagcggcgg tgtatcagaa agttgtgata ctggaagata
     3541 aactggcgga aaaacctgtc acgggtaaga accggaaaaa ctgacgcgct tcgcttgtcc
     3601 aacgcctcac ggacagcgaa aggatttcgc gttccgttca ccgttttcat gagtgattcc
     3661 tccgaactgc caaaaaatat ccctccctga cttgacagaa aaaataatgg cgagtacttt
     3721 ttgatctgta cataaaacca gtggttttat gtacagtatt aactatgtaa tcaattgttt
     3781 taacgcttaa aagagggaat ttttatgagc ggtggagatg gacgcgacca caacagtggc
     3841 gcacataaca caggtggtaa cattaatggc ggccctacgg ggcttggtgg aaatggtggg
     3901 gcttctgacg gttcaggatg gagttcggaa aataatccat ggggtggcgg ttccggtagt
     3961 ggtgttcact ggggaggtgg ctccggcaat ggtaatggcg gggggaatgg taattccggt
     4021 ggtggcagca attcatccgt agcagcagtg gcatttggtt ttcctgcttt ggcaactcct
     4081 ggtgccggaa cgctgggtat cgccgtctct ggtgaggctt tatctgcggc aatagctgat
     4141 atctttgcag ccctgaaagg tccgtttaaa ttcagcgcat ggggtattgc gctttacggc
     4201 attctgccat ctgaaatagc aaaagatgac ccgaatatga tgtcaaagat tgtgacgtca
     4261 ttaccggcag aaacagtgac gaatgttcag gtcagtacac ttccgctgga ccaggcaact
     4321 gtcagcgtga cgaaacgtgt gacagatgtt gtgaaggaca cacgacagca tattgccgta
     4381 gttgcaggtg tgcctatgag tgtgcctgtt gtgaatgcca aaccaacacg tactccaggt
     4441 gtatttcacg catcatttcc tggtgtccct tctctgacag tcagcactgt caaaggcctt
     4501 ccggtgtcaa caacccttcc ccgtggtatt acggaggata aaggccggac tgccgttcct
     4561 gcaggattta cctttggtgg tggttcacat gaagcggtga tccgttttcc gaaagaaagt
     4621 gggcagaagc cgatttatgt atcagtgaca gatgttctta cccctgcaca ggtaaaacaa
     4681 cgtcaggatg aggaaaatcg cctccagcag gaatggaatg acacacatcc tgtagaagtg
     4741 gctgaacgca attatgaaca ggcccgcgca gaactggatc aggctaataa agatgttgcc
     4801 agaaaccagg aacgacaggc taaagctgtt caggtttata attctcgtaa aagtgaactt
     4861 gatgctgcga ataaaactct tgctgatgca aaggctgaaa taaaacaatt cgagcgattt
     4921 gcccgagaac caatggctgc tggtcaccga atgtggcaaa tggcagggct taaggcccag
     4981 cgggcacaga cggatgtaaa taataagaag gctgcatttg atgctgctgc aaaagataag
     5041 tctgatgctg atgctgcgtt aggtgctgcg ctggaacgcc gtaagcagaa ggaaaataaa
     5101 gaaaaggact ctaaggataa attagataag gagagtaaac ggaataagcc agggaaggcg
     5161 acgggtaaag gaaaaccagt tggtgataaa tggcttgatg atgcgggtaa agattcagga
     5221 gcgccaattc ctgatcgcat tgctgataag ttgcgtgata aagaatttaa aagttttgac
     5281 gatttccgga agaaattctg ggaagaagtg tcaaaagatc ccgagcttag taagcaattt
     5341 aaagacagta ataagacgaa cattcaaaag ggaaaagcac cttttgcaag gaagaaagac
     5401 caagtaggtg gtagggaacg ctttgaatta catcatgata aaccaatcag tcaggatggt
     5461 ggtgtctatg atatggataa tatcagagtg accacaccta agcgacatat tgatattcat
     5521 agaggtaagt aaaaatggaa ctgaaacata gtattagtga ttataccgag gctgaatttc
     5581 tggagtttgt aaaaaaaata tgtagagctg aaggtgctac tgaagaggat gacaataaat
     5641 tagtgagaga gtttgagcga ttaactgagc acccagatgg ttcagatctg atttattatc
     5701 ctcgcgatga cagggaagat agtcctgaag ggattgttaa agaaattaaa gaatggcgag
     5761 ctgctaacgg taagccagga tttaaacagg gctaaaatat gaatgccggt tgtttatgga
     5821 tgaatggctg gcattctttc acaacaagga gtcgttatga aaaaaataac agggattatt
     5881 ttattgcttc ttgcagtcat tattctggct gcatgtcagg caaactatat ccgggatgtt
     5941 cagggcggga ctgtatcccc gtcatcaaca gctgaagtga ccggattagc aacgcagtaa
     6001 cccgaaatcc tctttgacaa aaacaaagcg tgtcaggctg attctgatgc gctttttttt
     6061 gaaatgtcac aaaaattcca tgcgggagat gagagctaaa atccccgtgc agaactttcc
     6121 acccagggcg agaaaacttg tcattttgac ctgttcgccc ttcggaacag tcgaaatcga
     6181 tcgcgcatcg ctttcgtgca tagttatgca gccctctaaa aacgattctg
//
