LOCUS       CP057054                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB39-C20 plasmid pRHB39-C20_5, complete
            sequence.
ACCESSION   CP057054
VERSION     CP057054.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148403
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                     :: RH09 T3-C20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 134.727787604404x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 05:47:45
            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)                     :: 5,048
            CDSs (total)                      :: 4,925
            Genes (coding)                    :: 4,762
            CDSs (with protein)               :: 4,762
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 54 of 163
            Pseudo Genes (incomplete)         :: 104 of 163
            Pseudo Genes (internal stop)      :: 30 of 163
            Pseudo Genes (multiple problems)  :: 21 of 163
            ##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="RHB39-C20"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB39-C20_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(549..977)
                     /gene="exc2"
                     /locus_tag="HVZ86_25215"
     CDS             complement(549..977)
                     /gene="exc2"
                     /locus_tag="HVZ86_25215"
                     /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="QMC14115.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            complement(1058..1495)
                     /locus_tag="HVZ86_25220"
     CDS             complement(1058..1495)
                     /locus_tag="HVZ86_25220"
                     /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="QMC14116.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            1749..2507
                     /locus_tag="HVZ86_25225"
     CDS             1749..2507
                     /locus_tag="HVZ86_25225"
                     /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="QMC14117.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            2590..3069
                     /locus_tag="HVZ86_25230"
     CDS             2590..3069
                     /locus_tag="HVZ86_25230"
                     /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="QMC14118.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            3081..3212
                     /locus_tag="HVZ86_25235"
     CDS             3081..3212
                     /locus_tag="HVZ86_25235"
                     /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="QMC14119.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(4198..4389)
                     /locus_tag="HVZ86_25240"
     CDS             complement(4198..4389)
                     /locus_tag="HVZ86_25240"
                     /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="QMC14120.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3485..4032)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gatactccgg aaaaacgcga gtctgttctc atgtctgaaa tgtccacacc ccacgcaaaa
       61 ccaacttttt gctgattttc tttttaaatc atgttgttat ggttttaaaa atgtattttc
      121 ttattcagat ttatacaaaa gcacgtcgtc gacgacccta tggcgacgct atgacgaccc
      181 tgcttagggt cagtactgac tatctgtaga aaaaacagtt aattaatgta ggggcgcccc
      241 taggggcgcg tcgccttttt ttacataaca cccctggggg cgctgccagg ggtgtctgcc
      301 cggatatgta gcaatgagcc agggattcac gaactgaaaa tgtccgaaaa tgtgcctcat
      361 gggcaccgta tgcgcccaaa cagatcgcta ttcagtttcg tgcatagtca tgcaacgccc
      421 tgaaaacgat cctgacgcat ttttccggtt ttcctggggg taaacatttc tttttgctgt
      481 gcctgcgtca gaatcgcgct caacgcgttt taatggtgcg tacaattaag ggattatggt
      541 aaatccactt actgtcttcc ctcgtagcca tcgagataaa tcgcagaaat cgtgtcagcc
      601 agcagcttca ttttttccgg tgatggcata tcactgttcg tgtattttct gcccgcaaag
      661 gtggttgtgg ttctcagtga ctgaaggaat tcttcagagt ggaattcttt tatgcgttgc
      721 tgtgccgttt ctgctgatac tccggctgct ttgtctttca cccccatctc cctgaactgc
      781 tgaaagaacg gaatcatcat ccgtgtggtg tcagctttct tggtgtagaa gttaggatcg
      841 aacccatcat ctgaagcata aacataatgc cgggtatgtt gttccaggct ggtttttggg
      901 gtacaggctg tgagggctgc tgacacagtt atcagggcgc taagatacat atagcgtgtg
      961 ccgccagaac gtttcatgcg agtctcctta ccttaatgta tttattttcg gtgagttatt
     1021 atcagaagac tatcttatca tcagtctctg acagcgttca gcgaccaaac aaccgggacc
     1081 agaatccccg tttcctttcc tgctccagcg cctgcctgag ctgggctatc tcattctgta
     1141 gttgttcccg ttctgcttcc tggcgccggc gctccgtatc ctgggcttgt ttatcctcaa
     1201 gcatcagcgt caggcattgt ttcagctcgt tcagctcccg gagaatgcgt tctgtctgct
     1261 gatcatgagg tttttctgcc tgtcccgctg tgtgcctttc tggtgtctca ttccgcttta
     1321 attcgccgta tgcccggatc agttcactag tttcaaactc ccgtcgtccg tcctggcttg
     1381 tacggtaact gacaaggcct gcgcgcatat cacggtaaaa ctgtgaacgc gatctgcccg
     1441 tcattttcag tgcgtcccgg agtgtgtgcc atgccataaa gtgacagtgt cccataggtg
     1501 tctcatctca tggtctcagt aaaacatact gaggccggag aacggtaatg tttgtgctgg
     1561 tttttgtggc atctggcggg gatggcacat ggtgtgagtg gctgtttttt tgaccgtttt
     1621 cacaaaaatg aaaatccaca gggttgacag ggaaaacgca gcggcgtaat tttaaactgt
     1681 atataaaacc agtggttata tatacagttg tattgatcgt tgttttaaat gtcaaagagg
     1741 aaattaagat gagtggtatt gaaaattcta atcaaggtcc ggggtggcat gatcacaata
     1801 ctccctatgg aacaattcat agttatgatg gggacagcca tagcggttat ggtgctcatt
     1861 ctggtggtaa tgggggaaat cgccatgaag gtatttctga taagacacat attagtatac
     1921 catctaccag aaactataat ggctactata tgagcatgtg tgttaataat ttaaaagccc
     1981 atgaggggtt caaaaacacc atgtataagg atagcgaagg taatattact gttggtattg
     2041 gtcatttgct atctacgcca gatatggcgg catctctccc ttttacaaga actcatacat
     2101 ggcatggtca tggtgatgat atggaaaaag aagttgcagc atcaaaaaaa gaaataaccg
     2161 atgcttttaa taactttaaa aaagactcta gacaagtacc aatgaacttg catttatcaa
     2221 atgatgctgt tattggatta tgtatttccg atgttcagac tacagagaaa ggcttgcgtt
     2281 ctttatattc tggttatgat ggtttttcta actctagaaa aactgcctta gtggatatgg
     2341 gatttaactt aggaattcct aagctatcga gaaactttcc gaactttaat gctgctgtga
     2401 accgtgggga ttgggagtct gcagcacgtg aaagccatcg aaatcttcat caacgaggcg
     2461 atcagagaaa caaggataca gcagatcagt tgcgggataa acattaatag accataacat
     2521 atagatatga gatgtatttc atcttatatt aaagatgaaa tacatcaacc tataatggga
     2581 atggattata tgatcaagcg gttattattc ttatatgttg ctttattgtt cttatcagaa
     2641 ggtgcttatg catctgtaac agtattcatt gctccaagtt gggaaaggaa tacagattca
     2701 gttaatgaga tatataaata tattgatgat ataaatagta ataaccatgt catcgatcaa
     2761 gcatatgtag aacctattag gaaggagtta ggggtatatc gagattatat ccagaaaaaa
     2821 ctaattaact ttaatgggaa gggagtttgt aaattatcga taacaacagg aagtacaggt
     2881 gttaaagata ttgagcctcc agatgttgtt ttgttaaact cattggcgga aaactcatca
     2941 ttagactgta aaaaactgta tagagaaata caaagtattg ttgataacga tccgtcactt
     3001 ttatttcctg agaaaataaa gtcaaatggt ttgttatcaa ttgatatgat cattgttatg
     3061 gggagataaa atacaattct atgcgtggtt tggttttttg tgcgctaatt ttaatattgc
     3121 ccggctgtca ggcaaattat atcagggatg ttcaaggagg gactgttgcg ccatcttcta
     3181 gctcagcagc tactggaatc gaaattaggt aaaaagatta aaggatcttc ttgagatcct
     3241 ttttttctac gcgtaatctg ctgcctgtaa acgaaaaaac ccacgttctc aggcgtgggt
     3301 tctttcgaag gttagaagtt tctcaggctt tctaacccga ggtaacaggg tgtacaagac
     3361 cgctgccacc aaatctgtcc tttcagtgta gccgcagtcg gtccttcact tcaagaacta
     3421 cgtatcagca atttcttgta catcctctac cagtggctgc tgccagtggc gttaagtcgt
     3481 gtcttaccgg gttggactca agacgatagt taccggataa ggcgcagcgg tcgggctgaa
     3541 cggggggttc gtgcacacag cccagcttgg agcgaacgac ctacaccaag ccgagatacc
     3601 aacagcgtga gctatgagaa agcgccacgc ttcccgaagg gagaaaggcg gacaggtatc
     3661 cggtaagtgg cagggtcgga acaggagagc gcacgaggga gcttccaggg ggaaacgcct
     3721 ggtatcttta tagtcctgtc gggtttcgcc acctctgact tgagcgtcaa tttttgtgat
     3781 gctcgtcagg ggggcggagc ctatggaaaa acgccagcgg cgcggccttt tgccctggtt
     3841 ttgccttttt gctcacatgt tctttccggc attatcccct gattctgtgg ataactgtat
     3901 tacagctttt gagtgagtag acaccgctcg ccgcagccga acgaccgagc gtagcgagtc
     3961 agtgagcgag gaagcggaag agcgcctata ctggcatttt ctccttacgc atctgtgcgg
     4021 catttcacac cggacatgcc gcatgattaa gccagtatac actccgctat cgctacgtga
     4081 ctgggtcatg gctgcgcccc gacacccgct aaaacccgct gacgcgccct gacgggcttg
     4141 tctgctcccg gcattcgctc acagacaagc tgtgaccgtc tccgggagct gcatatgtca
     4201 gagggtttca ccgtcatccc cgaaacgtgc gaggcaactg cggtaaagct catcggcgtg
     4261 gtcgtgaagc gattcacaga tgtctgcctg ttcatccgcg tccagttcgt tgagcttctc
     4321 cagcagggtt aatgtctggc ttctgatgaa gcgggccatg ttcagggcgg ttttttcctg
     4381 tttggtcact ggtctgatgt ctccgtgtaa gggaatttct gttcatggga gcatgataac
     4441 tgtgacgcag gcgagagtga taaagctgag tgagcggtta gtcaggggcg caaacattcg
     4501 aacgcggcca gtgcgatgca ggatagggaa aacgccgtaa aacgacgtcc ctttcggcaa
     4561 tagcaatatc atggcacagc atatcaactg ataaataatc cctgtgcagt acagccgctg
     4621 ttgcataaaa tcgcgctctg cggcgagtgt tttttaatca gatattccgc t
//
