LOCUS       CP057859                6230 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB13-C01 plasmid pRHB13-C01_6, complete
            sequence.
ACCESSION   CP057859
VERSION     CP057859.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148089
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-C01
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 94.6313732682813x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:57:17
            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)                     :: 5,025
            CDSs (total)                      :: 4,903
            Genes (coding)                    :: 4,762
            CDSs (with protein)               :: 4,762
            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)              :: 141
            CDSs (without protein)            :: 141
            Pseudo Genes (ambiguous residues) :: 0 of 141
            Pseudo Genes (frameshifted)       :: 63 of 141
            Pseudo Genes (incomplete)         :: 70 of 141
            Pseudo Genes (internal stop)      :: 27 of 141
            Pseudo Genes (multiple problems)  :: 19 of 141
            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-C01"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB13-C01_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5826..6230,1..1323))
                     /locus_tag="HVW72_25095"
     CDS             complement(join(5826..6230,1..1323))
                     /locus_tag="HVW72_25095"
                     /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="QMN42942.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            complement(1544..2077)
                     /locus_tag="HVW72_25100"
     CDS             complement(1544..2077)
                     /locus_tag="HVW72_25100"
                     /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="QMN42936.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2080..3006)
                     /locus_tag="HVW72_25105"
     CDS             complement(2080..3006)
                     /locus_tag="HVW72_25105"
                     /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="QMN42937.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFETAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREYGFD
                     MRDGVSRQERTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            3183..3581
                     /locus_tag="HVW72_25110"
     CDS             3183..3581
                     /locus_tag="HVW72_25110"
                     /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="QMN42938.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQNRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQELKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(3842..4861)
                     /locus_tag="HVW72_25115"
     CDS             complement(3842..4861)
                     /locus_tag="HVW72_25115"
                     /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="QMN42939.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(5358..5501)
                     /locus_tag="HVW72_25120"
     CDS             complement(5358..5501)
                     /locus_tag="HVW72_25120"
                     /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="QMN42940.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(5563..5823)
                     /locus_tag="HVW72_25125"
     CDS             complement(5563..5823)
                     /locus_tag="HVW72_25125"
                     /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="QMN42941.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     BGC             1..6230
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(4087..4861)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(2084..3006)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.403"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atctaattta tccttagagt ccttttcttt attttccttc tgcttacggc gttccagcgc
       61 agcacctaac gcagcatcag catcagactt atcttttgca gcagcatcaa atgcagcctt
      121 cttattattt acatccgtct gtgcccgctg ggccttaagc cctgccattt gccacattcg
      181 gtgaccagca gccattggtt ctcgggcaaa tcgctcgaat tgttttattt cagcctttgc
      241 atcagcaaga gttttattcg cagcatcaag ttcactttta cgagaattat aaacctgaac
      301 agctttagcc tgtcgttcct ggtttctggc aacatcttta ttagcctgat ccagttctgc
      361 gcgggcctgt tcataattgc gttcagccac ttctacagga tgtgtgtcat tccattcctg
      421 ctggaggcga ttttcctcat cctgacgttg ttttacctgt gcaggggtaa gaacatctgt
      481 cactgataca taaatcggct tctgcccact ttctttcgga aaacggatca ccgcttcatg
      541 tgaaccacca ccaaaggtaa atcctgcagg aacggcagtc cggcctttat cctccgtaat
      601 accacgggga agggttgttg acaccggaag gcctttgaca gtgctgactg tcagagaagg
      661 gacaccagga aatgatgcgt gaaatacacc tggagtacgt gttggtttgg cattcacaac
      721 aggcacactc ataggcacac ctgcaactac ggcaatatgc tgtcgtgtgt ccttcacaac
      781 atctgtcaca cgtttcgtca cgctgacagt tgcctggtcc agcggaagtg tactgacctg
      841 aacattcgtc actgtttctg ccggtaatga cgtcacaatc tttgacatca tattcgggtc
      901 atcttttgct atttcagatg gcagaatgcc gtaaagcgca ataccccatg cgctgaattt
      961 aaacggacct ttcagggctg caaagatatc agctattgcc gcagataaag cctcaccaga
     1021 gacggcgata cccagcgttc cggcaccagg agttgccaaa gcaggaaaac caaatgccac
     1081 tgctgctacg gatgaattgc tgccaccacc ggaattacca ttccccccgc cattaccatt
     1141 gccggagcca cctccccagt gaacaccact accggaaccg ccaccccatg gattattttc
     1201 cgaactccat cctgaaccgt cagaagcccc accatttcca ccaagccccg tagggccgcc
     1261 attaatgtta ccacctgtgt tatgtgcgcc actgttgtgg tcgcgtccat ctccaccgct
     1321 cataaaaatt ccctctttta agcgttaaaa caattgatta catagttaat actgtacata
     1381 aaaccactgg ttttatgtac agatcaaaaa gtactcgtca ttattttttc tgtcaagtca
     1441 gggggggata ttttttggca gttcggagga atcactcatg aaaacggtga acggaacgcg
     1501 aaatcctttc gcgggtcgtg aggcgttgga caagcgaagc gcgtcagttt ttccggctct
     1561 tacccgtgac aggtttctcc accagtttat cttccagtgt cacaactttc tgatacaccg
     1621 ccgctgtggc gttgtagttc ctgtcgagta ttgttttcat tccccatccg agcacacaga
     1681 acataaccag aaaagccact gacaccccac ccagccattt ccagctatac cctttaaggg
     1741 tgttgtattc ctgcacgata ttgctgtgaa ttgtcgcaat atccctgttc agggcatccg
     1801 cgtttgcctt catgtttgcg actgactctt ccagccgctg aaaatcctgg ctgatgcgct
     1861 cacctatcag tcctgccacg tccagcttct gcacctcatt tctgacttca tccctgacct
     1921 gttttgccac accgtcagaa atatcccgat atccgcgaag tgtttccctt gccacagcca
     1981 gagaatcagc aacagctttc tgttgctcca ttgcggtatg ttgcagatgc tccaccgata
     2041 acaggagcgt gagtaatttt tcttctgtgc tggccatgtt cagaatccca tagaaaatcc
     2101 acgtgacggt gatttaaccc gttcaggttc agttcgctcc tgtctgctca ctccgtctct
     2161 catgtcaaag ccatactccc gcgcaacatc atgttgcagc cttctgacca gttcatgttg
     2221 cttaaccgga gtgtccagcc attccctgat gtcatgcccg accgttcgcg cctgttcaag
     2281 atggcgggaa tagtccggtt cagaccgttt ttgcatgatg tcatgacgct gggcatcatc
     2341 aagccgtccg gcagtttcaa aacccagatg cacttcagga cgtcgttcaa tgccctgttc
     2401 tttcagcgtc cggcagtcaa tgaagcccct ttcaaagcca tgctttctca tatgttcgtt
     2461 gtgcttcacc tcccagcgtt ttcgcaattc ccgcaactgc tctttttgct gagtgggagt
     2521 caggcttcct gaatcctttt tcgcacctcc ccgctcggga tacctggcgt tatagcgccg
     2581 gaaatactgt tccggtgtac gttcaatgcc atcattcaca cgctgactca tcatgatatg
     2641 cgcatgaggc tgttcgcctc cctcaatgct cgctttcgga ttgtgaatgg caaaactcca
     2701 tgcatgccgt tcgccagctt cctgacgtac aaaatcctgc accagttcaa ggcgctgttc
     2761 cggtgtcagt tcacggggca gcgctatctc cagttcccga taagtcgaac cgtttgcacg
     2821 ttcaaactgg tcagccgcct gccagaaatg tgagggatta tctcgcgccc attccggcat
     2881 gtttccgtgt gcggaatatt ccaaatcctg acggtcgcgg tatttctctt tgcgctcgat
     2941 gtaatcggcg tggtttgcag cctgcccctt gccaccaaat ttaacgctga ggtgataggt
     3001 tgccacggtt tcagccctcc gcaggagcgc actgtttctc gacgaaggag agaaacatat
     3061 aagtgcgctt ccttctaatt ttacgaatta gcacggaaga tacctcctgc acccgccgac
     3121 cgcaagcgat atactgcacg accacaacac accgcaaaaa aacaccaggg agcaccacga
     3181 acatgcgcat cagcaacatc gaatggctga agaaacggat cggattcatc aggaagctcg
     3241 gagaacagac cgcacgacag agacagatta ttgacctgct cgacaacgaa gcaggactca
     3301 cagaacagga acgcaaactc ctccacgtac tggcaacagc ggaaaaaaac gacttacagg
     3361 cacaggagaa cgaacgaaaa caggcggtcc aaaatcgaat cgagggaaaa aaacaacgac
     3421 gagaacgcaa tcaccgactc tttctcgcgg ctgggctact gatcgaagca ggactggtag
     3481 acacaaaaac aggcgagcta tgctataaaa aagacaggat attacaggaa cttaaggaaa
     3541 ttaagtacga tctggagaca tccccaaacc cagacgcgta agtgcctcca tccgtgttcc
     3601 ggttccctgg tgcttcctcg ctcattcgct cgctacgctc ggtcatgaga ctgcggcgag
     3661 cacgaccacc tcaatcatgc ggtaagccgc accattgctg ggctgagagg agaaaaccgc
     3721 cggaaagccc gctgctcaaa aagacgccga aaggcgctgt tatctgatat aggcttgttc
     3781 atgtccgcga atttaacatc ccattaacaa aaaacggggg gtagtgttgc ttctttgtta
     3841 actaacattt aattatttgt ttcttggtta gccattctcc agaattatcc atccagcgtc
     3901 gaatagtccg gctgctaaca ccaaccgcca ctgcaatatc ttccgttgac gctcccaaga
     3961 tatacatatc aagcgcccta cgacgtttgt cgtcgttagc agtccaccga acagcggcgc
     4021 tttttttccc tttgtccgac tgattttctg acgaattggc cttcccgccc ttgcgaccgc
     4081 gtgctgcctg aatttctggc gtgtgcgtat cagccacata ctgtgcgaaa gtttccggcg
     4141 tgaagttcct gtgcgtgtat ttcgcaatgc tcttgccaat agcccgacat tcagccagtg
     4201 aaagcggaac gggaagcgat gcattgtaca tttcgacacg ctggatcacc gcttcaagcc
     4261 actgtgagaa cgctggccag ccctgacgaa tcgccctgta agcccatttg cgcgtcattt
     4321 cgaacaggtg gcagtttcgc cccatcccgt aatgtttatc gatgctacga cgctctgagg
     4381 cgctcaaatc gagataatct gccagttcat cgagggtata ggcgtcctcg cgccactcca
     4441 tcacctgcca ttccaggtgg aacggatttt tgcaaatcag gccgctgtag ttcacatcag
     4501 cacaaagttt ctcacacagc gaacgttcaa ccgctgcggc atatttcagc gccttaaccg
     4561 aggcatcagg cgcggttctc acggcgatgt tgagtgcgta gagcaggtga gcgtgtccgt
     4621 tcacaggatt tttaacggtg atgttcggcg cgggggcgtt ccggtcgctc cagtcaatcg
     4681 cagccccctc gcggtcaacg tcaaaaacca gccagaactg cgcatgaggc tggttctgct
     4741 ggatgtaccg cgcaagaagc gcacgccctt tgccggagat gcgaaggccg aaagcgagat
     4801 catccgtgtg atagggacga tggggtaaat tttcgtcgaa gtattgaagc gcggcgctca
     4861 tgtgttacga ttctctccgg gttatgcgac ctacacgccc tctgtatttc atgttgaatc
     4921 ttgccggatc tggacatgat ttcaggggcg tttgtttttc agccgcttac actacaccca
     4981 acggcaaatc ctgtcgatcc ttcccgaaaa accgatccat ttaccataac tcccgttgta
     5041 cgcacccctt aaaacgccct cagtcgcttt ctgacgcaaa aaacgcaaaa agacaagaaa
     5101 acaccaggcc aaaccagaaa aacgcgccag aatcgttttt agagggctgc ataactatgc
     5161 acgaaagcga tgcgcgatcg atttcgactg ttccgaaggg cgaacaggtc aaaatgacaa
     5221 gttttctcgc cctgggtgga aagttctgca cggggatttt agctctcatc tcccgcatgg
     5281 aatttttgtg acatttcaaa aaaaagcgca tcagaatcag cctgacacgc tttgtttttg
     5341 tcaaagagga tttcgggtta ctgcgttgct aatccggtca cttcagctgt tgatgacggg
     5401 gatacagtcc cgccctgaac atcccggata tagtttgcct gacatgcagc cagaataatg
     5461 actgcaagaa gcaataaaat aatccctgtt atttttttca taacgactcc ttgttgtgaa
     5521 agaatgccag ccattcatcc ataaacaacc ggcattcata ttttagccct gtttaaatcc
     5581 tggcttaccg ttagcagctc gccattcttt aatttcttta acaatccctt caggactatc
     5641 ttccctgtca tcgcgaggat aataaatcag atctgaacca tctgggtgct cagttaatcg
     5701 ctcaaactct ctcactaatt tattgtcatc ctcttcagta gcaccttcag ctctacatat
     5761 tttttttaca aactccagaa attcagcctc ggtataatca ctaatactat gtttcagttc
     5821 catttttact tacctctatg aatatcaata tgtcgcttag gtgtggtcac tctgatatta
     5881 tccatatcat agacaccacc atcctgactg attggtttat catgatgtaa ttcaaagcgt
     5941 tccctaccac ctacttggtc tttcttcctt gcaaaaggtg cttttccctt ttgaatgttc
     6001 gtcttattac tgtctttaaa ttgcttacta agctcgggat cttttgacac ttcttcccag
     6061 aatttcttcc ggaaatcgtc aaaactttta aattctttat cacgcaactt atcagcaatg
     6121 cgatcaggaa ttggcgctcc tgaatcttta cccgcatcat caagccattt atcaccaact
     6181 ggttttcctt tacccgtcgc cttccctggc ttattccgtt tactctcctt
//
