LOCUS       CP057625                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB20-C18 plasmid pRHB20-C18_5, complete
            sequence.
ACCESSION   CP057625
VERSION     CP057625.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148183
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 T2-C18
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 118.267888103994x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:34:19
            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)                     :: 5,102
            CDSs (total)                      :: 4,983
            Genes (coding)                    :: 4,846
            CDSs (with protein)               :: 4,846
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 62 of 137
            Pseudo Genes (incomplete)         :: 61 of 137
            Pseudo Genes (internal stop)      :: 45 of 137
            Pseudo Genes (multiple problems)  :: 26 of 137
            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="RHB20-C18"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB20-C18_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4598..4671,1..364))
                     /locus_tag="HVX66_25485"
     CDS             complement(join(4598..4671,1..364))
                     /locus_tag="HVX66_25485"
                     /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="QMK71648.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            618..1376
                     /locus_tag="HVX66_25490"
     CDS             618..1376
                     /locus_tag="HVX66_25490"
                     /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="QMK71643.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            1459..1938
                     /locus_tag="HVX66_25495"
     CDS             1459..1938
                     /locus_tag="HVX66_25495"
                     /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="QMK71644.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            1950..2081
                     /locus_tag="HVX66_25500"
     CDS             1950..2081
                     /locus_tag="HVX66_25500"
                     /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="QMK71645.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(3067..3258)
                     /locus_tag="HVX66_25505"
     CDS             complement(3067..3258)
                     /locus_tag="HVX66_25505"
                     /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="QMK71646.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4089..4517)
                     /gene="exc2"
                     /locus_tag="HVX66_25510"
     CDS             complement(4089..4517)
                     /gene="exc2"
                     /locus_tag="HVX66_25510"
                     /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="QMK71647.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     Typing          complement(2354..2901)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cattctgtag ttgttcccgt tctgcttcct ggcgccggcg ctccgtatcc tgggcttgtt
       61 tatcctcaag catcagcgtc aggcattgtt tcagctcgtt cagctcccgg agaatgcgtt
      121 ctgtctgctg atcatgaggt ttttctgcct gtcccgctgt gtgcctttct ggtgtctcat
      181 tccgctttaa ttcgccgtat gcccggatca gttcactagt ttcaaactcc cgtcgtccgt
      241 cctggcttgt acggtaactg acaaggcctg cgcgcatatc acggtaaaac tgtgaacgcg
      301 atctgcccgt cattttcagt gcgtcccgga gtgtgtgcca tgccataaag tgacagtgtc
      361 ccataggtgt ctcatctcat ggtctcagta aaacatactg aggccggaga acggtaatgt
      421 ttgtgctggt ttttgtggca tctggcgggg atggcacatg gtgtgagtgg ctgttttttt
      481 gaccgttttc acaaaaatga aaatccacag ggttgacagg gaaaacgcag cggcgtaatt
      541 ttaaactgta tataaaacta gtggttatat atacagttgt attgatcgtt gttttaaatg
      601 tcaaagagga aattaagatg agtggtattg aaaattctaa tcaaggtccg gggtggcatg
      661 atcacaatac tccctatgga acaattcata gttatgatgg ggacagccat agcggttatg
      721 gtgctcattc tggtggtaat gggggaaatc gccatgaagg tatttctgat aagacacata
      781 ttagtatacc atctaccaga aactataatg gctactatat gagcatgtgt gttaataatt
      841 taaaagccca tgaggggttc aaaaacacca tgtataagga tagcgaaggt aatattactg
      901 ttggtattgg tcatttgcta tctacgccag atatggcggc atctctccct tttacaagaa
      961 ctcatacatg gcatggtcat ggtgatgata tggaaaaaga agttgcagca tcaaaaaaag
     1021 aaataaccga tgcttttaat aactttaaaa aagactctag acaagtacca atgaacttgc
     1081 atttatcaaa tgatgctgtt attggattat gtatttccga tgttcagact acagagaaag
     1141 gcttgcgttc tttatattct ggttatgatg gtttttctaa ctctagaaaa actgccttag
     1201 tggatatggg atttaactta ggaattccta agctatcgag aaactttccg aactttaatg
     1261 ctgctgtgaa ccgtggggat tgggagtctg cagcacgtga aagccatcga aatcttcatc
     1321 aacgaggcga tcagagaaac aaggatacag cagatcagtt gcgggataaa cattaataga
     1381 ccataacata tagatatgag atgtatttca tcttatatta aagatgaaat acatcaacct
     1441 ataatgggaa tggattatat gatcaagcgg ttattattct tatatgttgc tttattgttc
     1501 ttatcagaag gtgcttatgc atctgtaaca gtattcattg ctccaagttg ggaaaggaat
     1561 acagattcag ttaatgagat atataaatat attgatgata taaatagtaa taaccatgtc
     1621 atcgatcaag catatgtaga acctattagg aaggagttag gggtatatcg agattatatc
     1681 cagaaaaaac taattaactt taatgggaag ggagtttgta aattatcgat aacaacagga
     1741 agtacaggtg ttaaagatat tgagcctcca gatgttgttt tgttaaactc attggcggaa
     1801 aactcatcat tagactgtaa aaaactgtat agagaaatac aaagtattgt tgataacgat
     1861 ccgtcacttt tatttcctga gaaaataaag tcaaatggtt tgttatcaat tgatatgatc
     1921 attgttatgg ggagataaaa tacaattcta tgcgtggttt ggttttttgt gcgctaattt
     1981 taatattgcc cggctgtcag gcaaattata tcagggatgt tcaaggaggg actgttgcgc
     2041 catcttctag ctcagcagct actggaatcg aaattaggta aaaagattaa aggatcttct
     2101 tgagatcctt tttttctacg cgtaatctgc tgcctgtaaa cgaaaaaacc cacgttctca
     2161 ggcgtgggtt ctttcgaagg ttagaagttt ctcaggcttt ctaacccgag gtaacagggt
     2221 gtacaagacc gctgccacca aatctgtcct ttcagtgtag ccgcagtcgg tccttcactt
     2281 caagaactac gtatcagcaa tttcttgtac atcctctacc agtggctgct gccagtggcg
     2341 ttaagtcgtg tcttaccggg ttggactcaa gacgatagtt accggataag gcgcagcggt
     2401 cgggctgaac ggggggttcg tgcacacagc ccagcttgga gcgaacgacc tacaccaagc
     2461 cgagatacca acagcgtgag ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg
     2521 acaggtatcc ggtaagtggc agggtcggaa caggagagcg cacgagggag cttccagggg
     2581 gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca cctctgactt gagcgtcaat
     2641 ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccagcggc gcggcctttt
     2701 gccctggttt tgcctttttg ctcacatgtt ctttccggca ttatcccctg attctgtgga
     2761 taactgtatt acagcttttg agtgagtaga caccgctcgc cgcagccgaa cgaccgagcg
     2821 tagcgagtca gtgagcgagg aagcggaaga gcgcctatac tggcattttc tccttacgca
     2881 tctgtgcggc atttcacacc ggacatgccg catgattaag ccagtataca ctccgctatc
     2941 gctacgtgac tgggtcatgg ctgcgccccg acacccgcta aaacccgctg acgcgccctg
     3001 acgggcttgt ctgctcccgg cattcgctca cagacaagct gtgaccgtct ccgggagctg
     3061 catatgtcag agggtttcac cgtcatcccc gaaacgtgcg aggcaactgc ggtaaagctc
     3121 atcggcgtgg tcgtgaagcg attcacagat gtctgcctgt tcatccgcgt ccagttcgtt
     3181 gagcttctcc agcagggtta atgtctggct tctgatgaag cgggccatgt tcagggcggt
     3241 tttttcctgt ttggtcactg gtctgatgtc tccgtgtaag ggaatttctg ttcatgggag
     3301 catgataact gtgacgcagg cgagagtgat aaagctgagt gagcggttag tcaggggcgc
     3361 aaacattcga acgcggccag tgcgatgcag gatagggaaa acgccgtaaa acgacgtccc
     3421 tttcggcaat agcaatatca tggcacagca tatcaactga taaataatcc ctgtgcagta
     3481 cagccgctgt tgcataaaat cgcgctctgc ggcgagtgtt ttttaatcag atattccgct
     3541 gatactccgg aaaaacgcga gtctgttctc atgtctgaaa tgtccacacc ccacgcaaaa
     3601 ccaacttttt gctgattttc tttttaaatc atgttgttat ggttttaaaa atgtattttc
     3661 ttattcagat ttatacaaaa gcacgtcgtc gacgacccta tggcgacgct atgacgaccc
     3721 tgcttagggt cagtactgac tatctgtaga aaaaacagtt aattaatgta ggggcgcccc
     3781 taggggcgcg tcgccttttt ttacataaca cccctggggg cgctgccagg ggtgtctgcc
     3841 cggatatgta gcaatgagcc agggattcac gaactgaaaa tgtccgaaaa tgtgcctcat
     3901 gggcaccgta tgcgcccaaa cagatcgcta ttcagtttcg tgcatagtca tgcaacgccc
     3961 tgaaaacgat cctgacgcat ttttccggtt ttcctggggg taaacatttc tttttgctgt
     4021 gcctgcgtca gaatcgcgct caacgcgttt taatggtgcg tacaattaag ggattatggt
     4081 aaatccactt actgtcttcc ctcgtagcca tcgagataaa tcgcagaaat cgtgtcagcc
     4141 agcagcttca ttttttccgg tgatggcata tcactgttcg tgtattttct gcccgcaaag
     4201 gtggttgtgg ttctcagtga ctgaaggaat tcttcagagt ggaattcttt tatgcgttgc
     4261 tgtgccgttt ctgctgatac tccggctgct ttgtctttca cccccatctc cctgaactgc
     4321 tgaaagaacg gaatcatcat ccgtgtggtg tcagctttct tggtgtagaa gttaggatcg
     4381 aacccatcat ctgaagcata aacataatgc cgggtatgtt gttccaggct ggtttttggg
     4441 gtacaggctg tgagggctgc tgacacagtt atcagggcgc taagatacat atagcgtgtg
     4501 ccgccagaac gtttcatgcg agtctcctta ccttaatgta tttattttcg gtgagttatt
     4561 atcagaagac tatcttatca tcagtctctg acagcgttca gcgaccaaac aaccgggacc
     4621 agaatccccg tttcctttcc tgctccagcg cctgcctgag ctgggctatc t
//
