LOCUS       CP057253                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB31-C19 plasmid pRHB31-C19_4, complete
            sequence.
ACCESSION   CP057253
VERSION     CP057253.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148310
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4671)
  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 4671)
  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                     :: RH10 T3-C19
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 136.776355490856x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:27:45
            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)                     :: 5,000
            CDSs (total)                      :: 4,875
            Genes (coding)                    :: 4,734
            CDSs (with protein)               :: 4,734
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 141
            CDSs (without protein)            :: 141
            Pseudo Genes (ambiguous residues) :: 0 of 141
            Pseudo Genes (frameshifted)       :: 64 of 141
            Pseudo Genes (incomplete)         :: 72 of 141
            Pseudo Genes (internal stop)      :: 40 of 141
            Pseudo Genes (multiple problems)  :: 30 of 141
            CRISPR Arrays                     :: 1
            ##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..4671
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB31-C19"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB31-C19_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            6..434
                     /gene="exc2"
                     /locus_tag="HVY93_24975"
     CDS             6..434
                     /gene="exc2"
                     /locus_tag="HVY93_24975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000830439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="QMF11266.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            1265..1456
                     /locus_tag="HVY93_24980"
     CDS             1265..1456
                     /locus_tag="HVY93_24980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QMF11261.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2442..2573)
                     /locus_tag="HVY93_24985"
     CDS             complement(2442..2573)
                     /locus_tag="HVY93_24985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368419.1"
                     /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="QMF11262.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(2585..3064)
                     /locus_tag="HVY93_24990"
     CDS             complement(2585..3064)
                     /locus_tag="HVY93_24990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001485345.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMF11263.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEHP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(3147..3905)
                     /locus_tag="HVY93_24995"
     CDS             complement(3147..3905)
                     /locus_tag="HVY93_24995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001555316.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMF11264.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            4159..4596
                     /locus_tag="HVY93_25000"
     CDS             4159..4596
                     /locus_tag="HVY93_25000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="QMF11265.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     Typing          1623..2170
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctcgcatgaa acgttctggc ggcacacgct atatgtatct tagcgccctg ataactgtgt
       61 cagcagccct cacagcctgt accccaaaaa ccagcctgga acaacatacc cggcattatg
      121 tttatgcttc agatgatggg ttcgatccta acttctacac caagaaagct gacaccacac
      181 ggatgatgat tccgttcttt cagcagttca gggagatggg ggtgaaagac aaagcagccg
      241 gagtatcagc agaaacggca cagcaacgca taaaagaatt ccactctgaa gaattccttc
      301 agtcactgag aaccacaacc acctttgcgg gcagaaaata cacgaacagt gatatgccat
      361 caccggaaaa aatgaagctg ctggctgaca cgatttctgc gatttatctc gatggctacg
      421 agggaagaca gtaagtggat ttaccataat cccttaattg tacgcaccat taaaacgcgt
      481 tgagcgcgat tctgacgcag gcacagcaaa aagaaatgtt tacccccagg aaaaccggaa
      541 aaatgcgtca ggatcgtttt cagggcgttg catgactatg cacgaaactg aatagcgatc
      601 tgtttgggcg catacggtgc ccatgaggca cattttcgga cattttcagt tcgtgaatcc
      661 ctggctcatt gctacatatc cgggcagaca cccctggcag cgcccccagg ggtgttatgt
      721 aaaaaaaggc gacgcgcccc taggggcgcc cctacattaa ttaactgttt tttctacaga
      781 tagtcagtac tgaccctaag cagggtcgtc atagcgtcgc catagggtcg tcgacgacgt
      841 gcttttgtat aaatctgaat aagaaaatac atttttaaaa ccataacaac atgatttaaa
      901 aagcaaatca gcaaaaagtt ggttttgcgt ggggtgtgga catttcagac atgagaacag
      961 actcgcgttt ttccggagta tcagcggaat atctgattaa aaaacactcg ccgcagagcg
     1021 cgattttatg caacagcggc tgtactgcac agggattatt tatcagttga tatgctgtgc
     1081 catgatattg ctattgccga aagggacgtc gttttacggc gttttcccta tcctgcatcg
     1141 cactggccgc gttcgaatgt ttgcgcccct gactaaccgc tcactcagct ttatcactct
     1201 cgcctgcgtc acagttatca tgctcccatg aacagaaatt cccttacacg gagacatcag
     1261 accagtgacc aaacaggaaa aaaccgccct gaacatggcc cgcttcatca gaagccagac
     1321 attaaccctg ctggagaagc tcaacgaact ggacgcggat gaacaggcag acatctgtga
     1381 atcgcttcac gaccacgccg atgagcttta ccgcagttgc ctcgcacgtt tcggggatga
     1441 cggtgaaacc ctctgacata tgcagctccc ggagacggtc acagcttgtc tgtgagcgaa
     1501 tgccgggagc agacaagccc gtcagggcgc gtcagcgggt tttagcgggt gtcggggcgc
     1561 agccatgacc cagtcacgta gcgatagcgg agtgtatact ggcttaatca tgcggcatgt
     1621 ccggtgtgaa atgccgcaca gatgcgtaag gagaaaatgc cagtataggc gctcttccgc
     1681 ttcctcgctc actgactcgc tacgctcggt cgttcggctg cggcgagcgg tgtctactca
     1741 ctcaaaagct gtaatacagt tatccacaga atcaggggat aatgccggaa agaacatgtg
     1801 agcaaaaagg caaaaccagg gaaaaaggcc gcgccgctgg cgtttttcca taggctccgc
     1861 ccccctgacg agcatcacaa aaattgacgc tcaagtcaga ggtggcgaaa cccgacagga
     1921 ctataaagat accaggcgtt tccccctgga agctccctcg tgcgctctcc tgttccgacc
     1981 ctgccactta ccggatacct gtccgccttt ctcccttcgg gaagcgtggc gctttctcat
     2041 agctcacgct gttggtatct cggcttggtg taggtcgttc gctccaagct gggctgtgtg
     2101 cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactatcg tcttgagtcc
     2161 aacccggtaa gacacgactt aacgccactg gcagcagcca ctggtagagg atgtacaaga
     2221 aattgctgat acgtagttct tgaagtgaag gaccgactgc ggctacactg aaaggacaga
     2281 tttggtggca gcggtcttgt acaccctgtt acctcgggtt agaaagcctg agaaacttct
     2341 aaccttcgaa agaacccacg cctgagaacg tgggtttttt cgtttacagg cagcagatta
     2401 cgcgtagaaa aaaaggatct caagaagatc ctttaatctt tttacctaat ttcgattcca
     2461 gtagctgctg agctagaaga tggcgcaaca gtccctcctt gaacatccct gatataattt
     2521 gcctgacagc cgggcaatat taaaattagc gcacaaaaaa ccaaaccacg catagaattg
     2581 tattttatct ccccataaca atgatcatat caattgataa caaaccattt gactttattt
     2641 tctcaggaaa taaaagtgac ggatcgttat caacaatact ttgtatttct ctatacagtt
     2701 ttttacagtc taatgatgag ttttccgcca atgagtttaa caaaacaaca tctggatgct
     2761 caatatcttt aacacctgta cttcctgttg ttatcgataa tttacaaact cccttcccat
     2821 taaagttaat tagttttttc tggatataat ctcgatatac ccctaactcc ttcctaatag
     2881 gttctacata tgcttgatcg atgacatggt tattactatt tatatcatca atatatttat
     2941 atatctcatt aactgaatct gtattccttt cccaacttgg agcaatgaat actgttacag
     3001 atgcataagc accttctgat aagaacaata aagcaacata taagaataat aaccgcttga
     3061 tcatataatc cattcccatt ataggttgat gtatttcatc tttaatataa gatgaaatac
     3121 atctcatatc tatatgttat ggtctattaa tgtttatccc gcaactgatc tgctgtatcc
     3181 ttgtttctct gatcgcctcg ttgatgaaga tttcgatggc tttcacgtgc tgcagactcc
     3241 caatccccac ggttcacagc agcattaaag ttcggaaagt ttctcgatag cttaggaatt
     3301 cctaagttaa atcccatatc cactaaggca gtttttctag agttagaaaa accatcataa
     3361 ccagaatata aagaacgcaa gcctttctct gtagtctgaa catcggaaat acataatcca
     3421 ataacagcat catttgataa atgcaagttc attggtactt gtctagagtc ttttttaaag
     3481 ttattaaaag catcggttat ttcttttttt gatgctgcaa cttctttttc catatcatca
     3541 ccatgaccat gccatgtatg agttcttgta aaagggagag atgccgccat atctggcgta
     3601 gatagcaaat gaccaatacc aacagtaata ttaccttcgc tatccttata catggtgttt
     3661 ttgaacccct catgggcttt taaattatta acacacatgc tcatatagta gccattatag
     3721 tttctggtag atggtatact aatatgtgtc ttatcagaaa taccttcatg gcgatttccc
     3781 ccattaccac cagaatgagc accataaccg ctatggctgt ccccatcata actatgaatt
     3841 gttccatagg gagtattgtg atcatgccac cccggacctt gattagaatt ttcaatacca
     3901 ctcatcttaa tttcctcttt gacatttaaa acaacgatca atacaactgt atatataacc
     3961 actggtttta tatacagttt aaaattacgc cgctgcgttt tccctgtcaa ccctgtggat
     4021 tttcattttt gtgaaaacgg tcaaaaaaac agccactcac accatgtgcc atccccgcca
     4081 gatgacacaa aaaccagcac aaacattacc gttctccggc ctcagtatgt tttactgaga
     4141 ccatgagatg agacacctat gggacactgt cactttatgg catggcacac actccgggac
     4201 gcactgaaaa tgacgggcag atcgcgttca cagttttacc gtgatatgcg cgcaggcctt
     4261 gtcagttacc gtacaagcca ggacggacga cgggagtttg aaactagtga actgatccgg
     4321 gcatacggcg aattaaagcg gaatgagaca ccagaaaggc acacagcggg acaggcagaa
     4381 aaacctcatg atcagcagac agaacgcatt ctccgggagc tgaacgagct gaaacaatgc
     4441 ctgacgctga tgcttgagga taaacaagcc caggatacgg agcgccggcg ccaggaagca
     4501 gaacgggaac aactacagaa tgagatagcc cagctcaggc aggcgctgga gcaggaaagg
     4561 aaacggggat tctggtcccg gttgtttggt cgctgaacgc tgtcagagac tgatgataag
     4621 atagtcttct gataataact caccgaaaat aaatacatta aggtaaggag a
//
