LOCUS       CP057848                6230 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB13-C03 plasmid pRHB13-C03_6, complete
            sequence.
ACCESSION   CP057848
VERSION     CP057848.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148091
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                     :: RH03 T1-C03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 89.3139305636394x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:01:10
            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)                     :: 5,028
            CDSs (total)                      :: 4,906
            Genes (coding)                    :: 4,764
            CDSs (with protein)               :: 4,764
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 142
            CDSs (without protein)            :: 142
            Pseudo Genes (ambiguous residues) :: 0 of 142
            Pseudo Genes (frameshifted)       :: 63 of 142
            Pseudo Genes (incomplete)         :: 71 of 142
            Pseudo Genes (internal stop)      :: 27 of 142
            Pseudo Genes (multiple problems)  :: 19 of 142
            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="RHB13-C03"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB13-C03_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4850..6230,1..347))
                     /locus_tag="HVW74_25110"
     CDS             complement(join(4850..6230,1..347))
                     /locus_tag="HVW74_25110"
                     /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="QMN33422.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            complement(568..1101)
                     /locus_tag="HVW74_25115"
     CDS             complement(568..1101)
                     /locus_tag="HVW74_25115"
                     /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="QMN33423.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(1104..2030)
                     /locus_tag="HVW74_25120"
     CDS             complement(1104..2030)
                     /locus_tag="HVW74_25120"
                     /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="QMN33424.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFETAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREYGFD
                     MRDGVSRQERTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2207..2605
                     /locus_tag="HVW74_25125"
     CDS             2207..2605
                     /locus_tag="HVW74_25125"
                     /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="QMN33425.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQNRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQELKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(2866..3885)
                     /locus_tag="HVW74_25130"
     CDS             complement(2866..3885)
                     /locus_tag="HVW74_25130"
                     /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="QMN33426.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(4382..4525)
                     /locus_tag="HVW74_25135"
     CDS             complement(4382..4525)
                     /locus_tag="HVW74_25135"
                     /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="QMN33427.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(4587..4847)
                     /locus_tag="HVW74_25140"
     CDS             complement(4587..4847)
                     /locus_tag="HVW74_25140"
                     /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="QMN33428.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     BGC             1..6230
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(3111..3885)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(1108..2030)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.403"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gctgcaaaga tatcagctat tgccgcagat aaagcctcac cagagacggc gatacccagc
       61 gttccggcac caggagttgc caaagcagga aaaccaaatg ccactgctgc tacggatgaa
      121 ttgctgccac caccggaatt accattcccc ccgccattac cattgccgga gccacctccc
      181 cagtgaacac cactaccgga accgccaccc catggattat tttccgaact ccatcctgaa
      241 ccgtcagaag ccccaccatt tccaccaagc cccgtagggc cgccattaat gttaccacct
      301 gtgttatgtg cgccactgtt gtggtcgcgt ccatctccac cgctcataaa aattccctct
      361 tttaagcgtt aaaacaattg attacatagt taatactgta cataaaacca ctggttttat
      421 gtacagatca aaaagtactc gtcattattt tttctgtcaa gtcagggggg gatatttttt
      481 ggcagttcgg aggaatcact catgaaaacg gtgaacggaa cgcgaaatcc tttcgcgggt
      541 cgtgaggcgt tggacaagcg aagcgcgtca gtttttccgg ctcttacccg tgacaggttt
      601 ctccaccagt ttatcttcca gtgtcacaac tttctgatac accgccgctg tggcgttgta
      661 gttcctgtcg agtattgttt tcattcccca tccgagcaca cagaacataa ccagaaaagc
      721 cactgacacc ccacccagcc atttccagct atacccttta agggtgttgt attcctgcac
      781 gatattgctg tgaattgtcg caatatccct gttcagggca tccgcgtttg ccttcatgtt
      841 tgcgactgac tcttccagcc gctgaaaatc ctggctgatg cgctcaccta tcagtcctgc
      901 cacgtccagc ttctgcacct catttctgac ttcatccctg acctgttttg ccacaccgtc
      961 agaaatatcc cgatatccgc gaagtgtttc ccttgccaca gccagagaat cagcaacagc
     1021 tttctgttgc tccattgcgg tatgttgcag atgctccacc gataacagga gcgtgagtaa
     1081 tttttcttct gtgctggcca tgttcagaat cccatagaaa atccacgtga cggtgattta
     1141 acccgttcag gttcagttcg ctcctgtctg ctcactccgt ctctcatgtc aaagccatac
     1201 tcccgcgcaa catcatgttg cagccttctg accagttcat gttgcttaac cggagtgtcc
     1261 agccattccc tgatgtcatg cccgaccgtt cgcgcctgtt caagatggcg ggaatagtcc
     1321 ggttcagacc gtttttgcat gatgtcatga cgctgggcat catcaagccg tccggcagtt
     1381 tcaaaaccca gatgcacttc aggacgtcgt tcaatgccct gttctttcag cgtccggcag
     1441 tcaatgaagc ccctttcaaa gccatgcttt ctcatatgtt cgttgtgctt cacctcccag
     1501 cgttttcgca attcccgcaa ctgctctttt tgctgagtgg gagtcaggct tcctgaatcc
     1561 tttttcgcac ctccccgctc gggatacctg gcgttatagc gccggaaata ctgttccggt
     1621 gtacgttcaa tgccatcatt cacacgctga ctcatcatga tatgcgcatg aggctgttcg
     1681 cctccctcaa tgctcgcttt cggattgtga atggcaaaac tccatgcatg ccgttcgcca
     1741 gcttcctgac gtacaaaatc ctgcaccagt tcaaggcgct gttccggtgt cagttcacgg
     1801 ggcagcgcta tctccagttc ccgataagtc gaaccgtttg cacgttcaaa ctggtcagcc
     1861 gcctgccaga aatgtgaggg attatctcgc gcccattccg gcatgtttcc gtgtgcggaa
     1921 tattccaaat cctgacggtc gcggtatttc tctttgcgct cgatgtaatc ggcgtggttt
     1981 gcagcctgcc ccttgccacc aaatttaacg ctgaggtgat aggttgccac ggtttcagcc
     2041 ctccgcagga gcgcactgtt tctcgacgaa ggagagaaac atataagtgc gcttccttct
     2101 aattttacga attagcacgg aagatacctc ctgcacccgc cgaccgcaag cgatatactg
     2161 cacgaccaca acacaccgca aaaaaacacc agggagcacc acgaacatgc gcatcagcaa
     2221 catcgaatgg ctgaagaaac ggatcggatt catcaggaag ctcggagaac agaccgcacg
     2281 acagagacag attattgacc tgctcgacaa cgaagcagga ctcacagaac aggaacgcaa
     2341 actcctccac gtactggcaa cagcggaaaa aaacgactta caggcacagg agaacgaacg
     2401 aaaacaggcg gtccaaaatc gaatcgaggg aaaaaaacaa cgacgagaac gcaatcaccg
     2461 actctttctc gcggctgggc tactgatcga agcaggactg gtagacacaa aaacaggcga
     2521 gctatgctat aaaaaagaca ggatattaca ggaacttaag gaaattaagt acgatctgga
     2581 gacatcccca aacccagacg cgtaagtgcc tccatccgtg ttccggttcc ctggtgcttc
     2641 ctcgctcatt cgctcgctac gctcggtcat gagactgcgg cgagcacgac cacctcaatc
     2701 atgcggtaag ccgcaccatt gctgggctga gaggagaaaa ccgccggaaa gcccgctgct
     2761 caaaaagacg ccgaaaggcg ctgttatctg atataggctt gttcatgtcc gcgaatttaa
     2821 catcccatta acaaaaaacg gggggtagtg ttgcttcttt gttaactaac atttaattat
     2881 ttgtttcttg gttagccatt ctccagaatt atccatccag cgtcgaatag tccggctgct
     2941 aacaccaacc gccactgcaa tatcttccgt tgacgctccc aagatataca tatcaagcgc
     3001 cctacgacgt ttgtcgtcgt tagcagtcca ccgaacagcg gcgctttttt tccctttgtc
     3061 cgactgattt tctgacgaat tggccttccc gcccttgcga ccgcgtgctg cctgaatttc
     3121 tggcgtgtgc gtatcagcca catactgtgc gaaagtttcc ggcgtgaagt tcctgtgcgt
     3181 gtatttcgca atgctcttgc caatagcccg acattcagcc agtgaaagcg gaacgggaag
     3241 cgatgcattg tacatttcga cacgctggat caccgcttca agccactgtg agaacgctgg
     3301 ccagccctga cgaatcgccc tgtaagccca tttgcgcgtc atttcgaaca ggtggcagtt
     3361 tcgccccatc ccgtaatgtt tatcgatgct acgacgctct gaggcgctca aatcgagata
     3421 atctgccagt tcatcgaggg tataggcgtc ctcgcgccac tccatcacct gccattccag
     3481 gtggaacgga tttttgcaaa tcaggccgct gtagttcaca tcagcacaaa gtttctcaca
     3541 cagcgaacgt tcaaccgctg cggcatattt cagcgcctta accgaggcat caggcgcggt
     3601 tctcacggcg atgttgagtg cgtagagcag gtgagcgtgt ccgttcacag gatttttaac
     3661 ggtgatgttc ggcgcggggg cgttccggtc gctccagtca atcgcagccc cctcgcggtc
     3721 aacgtcaaaa accagccaga actgcgcatg aggctggttc tgctggatgt accgcgcaag
     3781 aagcgcacgc cctttgccgg agatgcgaag gccgaaagcg agatcatccg tgtgataggg
     3841 acgatggggt aaattttcgt cgaagtattg aagcgcggcg ctcatgtgtt acgattctct
     3901 ccgggttatg cgacctacac gccctctgta tttcatgttg aatcttgccg gatctggaca
     3961 tgatttcagg ggcgtttgtt tttcagccgc ttacactaca cccaacggca aatcctgtcg
     4021 atccttcccg aaaaaccgat ccatttacca taactcccgt tgtacgcacc ccttaaaacg
     4081 ccctcagtcg ctttctgacg caaaaaacgc aaaaagacaa gaaaacacca ggccaaacca
     4141 gaaaaacgcg ccagaatcgt ttttagaggg ctgcataact atgcacgaaa gcgatgcgcg
     4201 atcgatttcg actgttccga agggcgaaca ggtcaaaatg acaagttttc tcgccctggg
     4261 tggaaagttc tgcacgggga ttttagctct catctcccgc atggaatttt tgtgacattt
     4321 caaaaaaaag cgcatcagaa tcagcctgac acgctttgtt tttgtcaaag aggatttcgg
     4381 gttactgcgt tgctaatccg gtcacttcag ctgttgatga cggggataca gtcccgccct
     4441 gaacatcccg gatatagttt gcctgacatg cagccagaat aatgactgca agaagcaata
     4501 aaataatccc tgttattttt ttcataacga ctccttgttg tgaaagaatg ccagccattc
     4561 atccataaac aaccggcatt catattttag ccctgtttaa atcctggctt accgttagca
     4621 gctcgccatt ctttaatttc tttaacaatc ccttcaggac tatcttccct gtcatcgcga
     4681 ggataataaa tcagatctga accatctggg tgctcagtta atcgctcaaa ctctctcact
     4741 aatttattgt catcctcttc agtagcacct tcagctctac atattttttt tacaaactcc
     4801 agaaattcag cctcggtata atcactaata ctatgtttca gttccatttt tacttacctc
     4861 tatgaatatc aatatgtcgc ttaggtgtgg tcactctgat attatccata tcatagacac
     4921 caccatcctg actgattggt ttatcatgat gtaattcaaa gcgttcccta ccacctactt
     4981 ggtctttctt ccttgcaaaa ggtgcttttc ccttttgaat gttcgtctta ttactgtctt
     5041 taaattgctt actaagctcg ggatcttttg acacttcttc ccagaatttc ttccggaaat
     5101 cgtcaaaact tttaaattct ttatcacgca acttatcagc aatgcgatca ggaattggcg
     5161 ctcctgaatc tttacccgca tcatcaagcc atttatcacc aactggtttt cctttacccg
     5221 tcgccttccc tggcttattc cgtttactct ccttatctaa tttatcctta gagtcctttt
     5281 ctttattttc cttctgctta cggcgttcca gcgcagcacc taacgcagca tcagcatcag
     5341 acttatcttt tgcagcagca tcaaatgcag ccttcttatt atttacatcc gtctgtgccc
     5401 gctgggcctt aagccctgcc atttgccaca ttcggtgacc agcagccatt ggttctcggg
     5461 caaatcgctc gaattgtttt atttcagcct ttgcatcagc aagagtttta ttcgcagcat
     5521 caagttcact tttacgagaa ttataaacct gaacagcttt agcctgtcgt tcctggtttc
     5581 tggcaacatc tttattagcc tgatccagtt ctgcgcgggc ctgttcataa ttgcgttcag
     5641 ccacttctac aggatgtgtg tcattccatt cctgctggag gcgattttcc tcatcctgac
     5701 gttgttttac ctgtgcaggg gtaagaacat ctgtcactga tacataaatc ggcttctgcc
     5761 cactttcttt cggaaaacgg atcaccgctt catgtgaacc accaccaaag gtaaatcctg
     5821 caggaacggc agtccggcct ttatcctccg taataccacg gggaagggtt gttgacaccg
     5881 gaaggccttt gacagtgctg actgtcagag aagggacacc aggaaatgat gcgtgaaata
     5941 cacctggagt acgtgttggt ttggcattca caacaggcac actcataggc acacctgcaa
     6001 ctacggcaat atgctgtcgt gtgtccttca caacatctgt cacacgtttc gtcacgctga
     6061 cagttgcctg gtccagcgga agtgtactga cctgaacatt cgtcactgtt tctgccggta
     6121 atgacgtcac aatctttgac atcatattcg ggtcatcttt tgctatttca gatggcagaa
     6181 tgccgtaaag cgcaataccc catgcgctga atttaaacgg acctttcagg
//
