LOCUS       CP057586                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB22-C05 plasmid pRHB22-C05_3, complete
            sequence.
ACCESSION   CP057586
VERSION     CP057586.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148201
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                     :: RH07 T2-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 125.785859532912x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:41:03
            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)                     :: 4,922
            CDSs (total)                      :: 4,803
            Genes (coding)                    :: 4,697
            CDSs (with protein)               :: 4,697
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 106
            CDSs (without protein)            :: 106
            Pseudo Genes (ambiguous residues) :: 0 of 106
            Pseudo Genes (frameshifted)       :: 58 of 106
            Pseudo Genes (incomplete)         :: 45 of 106
            Pseudo Genes (internal stop)      :: 33 of 106
            Pseudo Genes (multiple problems)  :: 26 of 106
            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..4671
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB22-C05"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB22-C05_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            701..892
                     /locus_tag="HVX84_24585"
     CDS             701..892
                     /locus_tag="HVX84_24585"
                     /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="QMK06498.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1878..2009)
                     /locus_tag="HVX84_24590"
     CDS             complement(1878..2009)
                     /locus_tag="HVX84_24590"
                     /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="QMK06499.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(2021..2500)
                     /locus_tag="HVX84_24595"
     CDS             complement(2021..2500)
                     /locus_tag="HVX84_24595"
                     /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="QMK06500.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(2583..3341)
                     /locus_tag="HVX84_24600"
     CDS             complement(2583..3341)
                     /locus_tag="HVX84_24600"
                     /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="QMK06501.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            3595..4032
                     /locus_tag="HVX84_24605"
     CDS             3595..4032
                     /locus_tag="HVX84_24605"
                     /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="QMK06502.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            4113..4541
                     /gene="exc2"
                     /locus_tag="HVX84_24610"
     CDS             4113..4541
                     /gene="exc2"
                     /locus_tag="HVX84_24610"
                     /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="QMK06503.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     Typing          1059..1606
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gcgttgcatg actatgcacg aaactgaata gcgatctgtt tgggcgcata cggtgcccat
       61 gaggcacatt ttcggacatt ttcagttcgt gaatccctgg ctcattgcta catatccggg
      121 cagacacccc tggcagcgcc cccaggggtg ttatgtaaaa aaaggcgacg cgcccctagg
      181 ggcgccccta cattaattaa ctgttttttc tacagatagt cagtactgac cctaagcagg
      241 gtcgtcatag cgtcgccata gggtcgtcga cgacgtgctt ttgtataaat ctgaataaga
      301 aaatacattt ttaaaaccat aacaacatga tttaaaaagc aaatcagcaa aaagttggtt
      361 ttgcgtgggg tgtggacatt tcagacatga gaacagactc gcgtttttcc gaagtatcag
      421 cggaatatct gattaaaaaa cactcgccgc agagcgcgat tttatgcaac agcggctgta
      481 ctgcacaggg attatttatc agttgatatg ctgtgccatg atattgctat tgccgaaagg
      541 gacgtcgttt tacggcgttt tccctatcct gcatcgcact ggccgcgttc gaatgtttgc
      601 gcccctgact aaccgctcac tcagctttat cactctcgcc tgcgtcacag ttatcatgct
      661 cccatgaaca gaaattccct tacacggaga catcagacca gtgaccaaac aggaaaaaac
      721 cgccctgaac atggcccgct tcatcagaag ccagacatta accctgctgg agaagctcaa
      781 cgaactggac gcggatgaac aggcagacat ctgtgaatcg cttcacgacc acgccgatga
      841 gctttaccgc agttgcctcg cacgtttcgg ggatgacggt gaaaccctct gacatatgca
      901 gctcccggag acggtcacag cttgtctgtg agcgaatgcc gggagcagac aagcccgtca
      961 gggcgcgtca gcgggtttta gcgggtgtcg gggcgcagcc atgacccagt cacgtagcga
     1021 tagcggagtg tatactggct taatcatgcg gcatgtccgg tgtgaaatgc cgcacagatg
     1081 cgtaaggaga aaatgccagt ataggcgctc ttccgcttcc tcgctcactg actcgctacg
     1141 ctcggtcgtt cggctgcggc gagcggtgtc tactcactca aaagctgtaa tacagttatc
     1201 cacagaatca ggggataatg ccggaaagaa catgtgagca aaaaggcaaa accagggcaa
     1261 aaggccgcgc cgctggcgtt tttccatagg ctccgccccc ctgacgagca tcacaaaaat
     1321 tgacgctcaa gtcagaggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
     1381 cctggaagct ccctcgtgcg ctctcctgtt ccgaccctgc cacttaccgg atacctgtcc
     1441 gcctttctcc cttcgggaag cgtggcgctt tctcatagct cacgctgttg gtatctcggc
     1501 ttggtgtagg tcgttcgctc caagctgggc tgtgtgcacg aaccccccgt tcagcccgac
     1561 cgctgcgcct tatccggtaa ctatcgtctt gagtccaacc cggtaagaca cgacttaacg
     1621 ccactggcag cagccactgg tagaggatgt acaagaaatt gctgatacgt agttcttgaa
     1681 gtgaaggacc gactgcggct acactgaaag gacagatttg gtggcagcgg tcttgtacac
     1741 cctgttacct cgggttagaa agcctgagaa acttctaacc ttcgaaagaa cccacgcctg
     1801 agaacgtggg ttttttcgtt tacaggcagc agattacgcg tagaaaaaaa ggatctcaag
     1861 aagatccttt aatcttttta cctaatttcg attccagtag ctgctgagct agaagatggc
     1921 gcaacagtcc ctccttgaac atccctgata taatttgcct gacagccggg caatattaaa
     1981 attagcgcac aaaaaaccaa accacgcata gaattgtatt ttatctcccc ataacaatga
     2041 tcatatcaat tgataacaaa ccatttgact ttattttctc aggaaataaa agtgacggat
     2101 cgttatcaac aatactttgt atttctctat acagtttttt acagtctaat gatgagtttt
     2161 ccgccaatga gtttaacaaa acaacatctg gaggctcaat atctttaaca cctgtacttc
     2221 ctgttgttat cgataattta caaactccct tcccattaaa gttaattagt tttttctgga
     2281 tataatctcg atatacccct aactccttcc taataggttc tacatatgct tgatcgatga
     2341 catggttatt actatttata tcatcaatat atttatatat ctcattaact gaatctgtat
     2401 tcctttccca acttggagca atgaatactg ttacagatgc ataagcacct tctgataaga
     2461 acaataaagc aacatataag aataataacc gcttgatcat ataatccatt cccattatag
     2521 gttgatgtat ttcatcttta atataagatg aaatacatct catatctata tgttatggtc
     2581 tattaatgtt tatcccgcaa ctgatctgct gtatccttgt ttctctgatc gcctcgttga
     2641 tgaagatttc gatggctttc acgtgctgca gactcccaat ccccacggtt cacagcagca
     2701 ttaaagttcg gaaagtttct cgatagctta ggaattccta agttaaatcc catatccact
     2761 aaggcagttt ttctagagtt agaaaaacca tcataaccag aatataaaga acgcaagcct
     2821 ttctctgtag tctgaacatc ggaaatacat aatccaataa cagcatcatt tgataaatgc
     2881 aagttcattg gtacttgtct agagtctttt ttaaagttat taaaagcatc ggttatttct
     2941 ttttttgatg ctgcaacttc tttttccata tcatcaccat gaccatgcca tgtatgagtt
     3001 cttgtaaaag ggagagatgc cgccatatct ggcgtagata gcaaatgacc aataccaaca
     3061 gtaatattac cttcgctatc cttatacatg gtgtttttga acccctcatg ggcttttaaa
     3121 ttattaacac acatgctcat atagtagcca ttatagtttc tggtagatgg tatactaata
     3181 tgtgtcttat cagaaatacc ttcatggcga tttcccccat taccaccaga atgagcacca
     3241 taaccgctat ggctgtcccc atcataacta tgaattgttc catagggagt attgtgatca
     3301 tgccaccccg gaccttgatt agaattttca ataccactca tcttaatttc ctctttgaca
     3361 tttaaaacaa cgatcaatac aactgtatat ataaccacta gttttatata cagtttaaaa
     3421 ttacgccgct gcgttttccc tgtcaaccct gtggattttc atttttgtga aaacggtcaa
     3481 aaaaacagcc actcacacca tgtgccatcc ccgccagatg ccacaaaaac cagcacaaac
     3541 attaccgttc tccggcctca gtatgtttta ctgagaccat gagatgagac acctatggga
     3601 cactgtcact ttatggcatg gcacacactc cgggacgcac tgaaaatgac gggcagatcg
     3661 cgttcacagt tttaccgtga tatgcgcgca ggccttgtca gttaccgtac aagccaggac
     3721 ggacgacggg agtttgaaac tagtgaactg atccgggcat acggcgaatt aaagcggaat
     3781 gagacaccag aaaggcacac agcgggacag gcagaaaaac ctcatgatca gcagacagaa
     3841 cgcattctcc gggagctgaa cgagctgaaa caatgcctga cgctgatgct tgaggataaa
     3901 caagcccagg atacggagcg ccggcgccag gaagcagaac gggaacaact acagaatgag
     3961 atagcccagc tcaggcaggc gctggagcag gaaaggaaac ggggattctg gtcccggttg
     4021 tttggtcgct gaacgctgtc agagactgat gataagatag tcttctgata ataactcacc
     4081 gaaaataaat acattaaggt aaggagactc gcatgaaacg ttctggcggc acacgctata
     4141 tgtatcttag cgccctgata actgtgtcag cagccctcac agcctgtacc ccaaaaacca
     4201 gcctggaaca acatacccgg cattatgttt atgcttcaga tgatgggttc gatcctaact
     4261 tctacaccaa gaaagctgac accacacgga tgatgattcc gttctttcag cagttcaggg
     4321 agatgggggt gaaagacaaa gcagccggag tatcagcaga aacggcacag caacgcataa
     4381 aagaattcca ctctgaagaa ttccttcagt cactgagaac cacaaccacc tttgcgggca
     4441 gaaaatacac gaacagtgat atgccatcac cggaaaaaat gaagctgctg gctgacacga
     4501 tttctgcgat ttatctcgat ggctacgagg gaagacagta agtggattta ccataatccc
     4561 ttaattgtac gcaccattaa aacgcgttga gcgcgattct gacgcaggca cagcaaaaag
     4621 aaatgtttac ccacaggaaa accggaaaaa tgcgtcagga tcgttttcag g
//
