LOCUS       CP057576                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB22-C17 plasmid pRHB22-C17_3, complete
            sequence.
ACCESSION   CP057576
VERSION     CP057576.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148206
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-C17
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 139.851915751256x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:29:15
            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)                     :: 4,923
            CDSs (total)                      :: 4,804
            Genes (coding)                    :: 4,696
            CDSs (with protein)               :: 4,696
            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)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 59 of 108
            Pseudo Genes (incomplete)         :: 45 of 108
            Pseudo Genes (internal stop)      :: 34 of 108
            Pseudo Genes (multiple problems)  :: 26 of 108
            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-C17"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB22-C17_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4556..4671,1..364)
                     /locus_tag="HVX89_24590"
     CDS             join(4556..4671,1..364)
                     /locus_tag="HVX89_24590"
                     /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="QMJ86362.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            376..507
                     /locus_tag="HVX89_24595"
     CDS             376..507
                     /locus_tag="HVX89_24595"
                     /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="QMJ86363.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(1493..1684)
                     /locus_tag="HVX89_24600"
     CDS             complement(1493..1684)
                     /locus_tag="HVX89_24600"
                     /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="QMJ86364.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2515..2943)
                     /gene="exc2"
                     /locus_tag="HVX89_24605"
     CDS             complement(2515..2943)
                     /gene="exc2"
                     /locus_tag="HVX89_24605"
                     /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="QMJ86365.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            complement(3024..3461)
                     /locus_tag="HVX89_24610"
     CDS             complement(3024..3461)
                     /locus_tag="HVX89_24610"
                     /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="QMJ86366.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            3715..4473
                     /locus_tag="HVX89_24615"
     CDS             3715..4473
                     /locus_tag="HVX89_24615"
                     /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="QMJ86367.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     Typing          complement(780..1327)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgagatatat aaatatattg atgatataaa tagtaataac catgtcatcg atcaagcata
       61 tgtagaacct attaggaagg agttaggggt atatcgagat tatatccaga aaaaactaat
      121 taactttaat gggaagggag tttgtaaatt atcgataaca acaggaagta caggtgttaa
      181 agatattgag cctccagatg ttgttttgtt aaactcattg gcggaaaact catcattaga
      241 ctgtaaaaaa ctgtatagag aaatacaaag tattgttgat aacgatccgt cacttttatt
      301 tcctgagaaa ataaagtcaa atggtttgtt atcaattgat atgatcattg ttatggggag
      361 ataaaataca attctatgcg tggtttggtt ttttgtgcgc taattttaat attgcccggc
      421 tgtcaggcaa attatatcag ggatgttcaa ggagggactg ttgcgccatc ttctagctca
      481 gcagctactg gaatcgaaat taggtaaaaa gattaaagga tcttcttgag atcctttttt
      541 tctacgcgta atctgctgcc tgtaaacgaa aaaacccacg ttctcaggcg tgggttcttt
      601 cgaaggttag aagtttctca ggctttctaa cccgaggtaa cagggtgtac aagaccgctg
      661 ccaccaaatc tgtcctttca gtgtagccgc agtcggtcct tcacttcaag aactacgtat
      721 cagcaatttc ttgtacatcc tctaccagtg gctgctgcca gtggcgttaa gtcgtgtctt
      781 accgggttgg actcaagacg atagttaccg gataaggcgc agcggtcggg ctgaacgggg
      841 ggttcgtgca cacagcccag cttggagcga acgacctaca ccaagccgag ataccaacag
      901 cgtgagctat gagaaagcgc cacgcttccc gaagggagaa aggcggacag gtatccggta
      961 agtggcaggg tcggaacagg agagcgcacg agggagcttc cagggggaaa cgcctggtat
     1021 ctttatagtc ctgtcgggtt tcgccacctc tgacttgagc gtcaattttt gtgatgctcg
     1081 tcaggggggc ggagcctatg gaaaaacgcc agcggcgcgg ccttttgccc tggttttgcc
     1141 tttttgctca catgttcttt ccggcattat cccctgattc tgtggataac tgtattacag
     1201 cttttgagtg agtagacacc gctcgccgca gccgaacgac cgagcgtagc gagtcagtga
     1261 gcgaggaagc ggaagagcgc ctatactggc attttctcct tacgcatctg tgcggcattt
     1321 cacaccggac atgccgcatg attaagccag tatacactcc gctatcgcta cgtgactggg
     1381 tcatggctgc gccccgacac ccgctaaaac ccgctgacgc gccctgacgg gcttgtctgc
     1441 tcccggcatt cgctcacaga caagctgtga ccgtctccgg gagctgcata tgtcagaggg
     1501 tttcaccgtc atccccgaaa cgtgcgaggc aactgcggta aagctcatcg gcgtggtcgt
     1561 gaagcgattc acagatgtct gcctgttcat ccgcgtccag ttcgttgagc ttctccagca
     1621 gggttaatgt ctggcttctg atgaagcggg ccatgttcag ggcggttttt tcctgtttgg
     1681 tcactggtct gatgtctccg tgtaagggaa tttctgttca tgggagcatg ataactgtga
     1741 cgcaggcgag agtgataaag ctgagtgagc ggttagtcag gggcgcaaac attcgaacgc
     1801 ggccagtgcg atgcaggata gggaaaacgc cgtaaaacga cgtccctttc ggcaatagca
     1861 atatcatggc acagcatatc aactgataaa taatccctgt gcagtacagc cgctgttgca
     1921 taaaatcgcg ctctgcggcg agtgtttttt aatcagatat tccgctgata cttcggaaaa
     1981 acgcgagtct gttctcatgt ctgaaatgtc cacaccccac gcaaaaccaa ctttttgctg
     2041 atttgctttt taaatcatgt tgttatggtt ttaaaaatgt attttcttat tcagatttat
     2101 acaaaagcac gtcgtcgacg accctatggc gacgctatga cgaccctgct tagggtcagt
     2161 actgactatc tgtagaaaaa acagttaatt aatgtagggg cgcccctagg ggcgcgtcgc
     2221 ctttttttac ataacacccc tgggggcgct gccaggggtg tctgcccgga tatgtagcaa
     2281 tgagccaggg attcacgaac tgaaaatgtc cgaaaatgtg cctcatgggc accgtatgcg
     2341 cccaaacaga tcgctattca gtttcgtgca tagtcatgca acgccctgaa aacgatcctg
     2401 acgcattttt ccggttttcc tgtgggtaaa catttctttt tgctgtgcct gcgtcagaat
     2461 cgcgctcaac gcgttttaat ggtgcgtaca attaagggat tatggtaaat ccacttactg
     2521 tcttccctcg tagccatcga gataaatcgc agaaatcgtg tcagccagca gcttcatttt
     2581 ttccggtgat ggcatatcac tgttcgtgta ttttctgccc gcaaaggtgg ttgtggttct
     2641 cagtgactga aggaattctt cagagtggaa ttcttttatg cgttgctgtg ccgtttctgc
     2701 tgatactccg gctgctttgt ctttcacccc catctccctg aactgctgaa agaacggaat
     2761 catcatccgt gtggtgtcag ctttcttggt gtagaagtta ggatcgaacc catcatctga
     2821 agcataaaca taatgccggg tatgttgttc caggctggtt tttggggtac aggctgtgag
     2881 ggctgctgac acagttatca gggcgctaag atacatatag cgtgtgccgc cagaacgttt
     2941 catgcgagtc tccttacctt aatgtattta ttttcggtga gttattatca gaagactatc
     3001 ttatcatcag tctctgacag cgttcagcga ccaaacaacc gggaccagaa tccccgtttc
     3061 ctttcctgct ccagcgcctg cctgagctgg gctatctcat tctgtagttg ttcccgttct
     3121 gcttcctggc gccggcgctc cgtatcctgg gcttgtttat cctcaagcat cagcgtcagg
     3181 cattgtttca gctcgttcag ctcccggaga atgcgttctg tctgctgatc atgaggtttt
     3241 tctgcctgtc ccgctgtgtg cctttctggt gtctcattcc gctttaattc gccgtatgcc
     3301 cggatcagtt cactagtttc aaactcccgt cgtccgtcct ggcttgtacg gtaactgaca
     3361 aggcctgcgc gcatatcacg gtaaaactgt gaacgcgatc tgcccgtcat tttcagtgcg
     3421 tcccggagtg tgtgccatgc cataaagtga cagtgtccca taggtgtctc atctcatggt
     3481 ctcagtaaaa catactgagg ccggagaacg gtaatgtttg tgctggtttt tgtggcatct
     3541 ggcggggatg gcacatggtg tgagtggctg tttttttgac cgttttcaca aaaatgaaaa
     3601 tccacagggt tgacagggaa aacgcagcgg cgtaatttta aactgtatat aaaactagtg
     3661 gttatatata cagttgtatt gatcgttgtt ttaaatgtca aagaggaaat taagatgagt
     3721 ggtattgaaa attctaatca aggtccgggg tggcatgatc acaatactcc ctatggaaca
     3781 attcatagtt atgatgggga cagccatagc ggttatggtg ctcattctgg tggtaatggg
     3841 ggaaatcgcc atgaaggtat ttctgataag acacatatta gtataccatc taccagaaac
     3901 tataatggct actatatgag catgtgtgtt aataatttaa aagcccatga ggggttcaaa
     3961 aacaccatgt ataaggatag cgaaggtaat attactgttg gtattggtca tttgctatct
     4021 acgccagata tggcggcatc tctccctttt acaagaactc atacatggca tggtcatggt
     4081 gatgatatgg aaaaagaagt tgcagcatca aaaaaagaaa taaccgatgc ttttaataac
     4141 tttaaaaaag actctagaca agtaccaatg aacttgcatt tatcaaatga tgctgttatt
     4201 ggattatgta tttccgatgt tcagactaca gagaaaggct tgcgttcttt atattctggt
     4261 tatgatggtt tttctaactc tagaaaaact gccttagtgg atatgggatt taacttagga
     4321 attcctaagc tatcgagaaa ctttccgaac tttaatgctg ctgtgaaccg tggggattgg
     4381 gagtctgcag cacgtgaaag ccatcgaaat cttcatcaac gaggcgatca gagaaacaag
     4441 gatacagcag atcagttgcg ggataaacat taatagacca taacatatag atatgagatg
     4501 tatttcatct tatattaaag atgaaataca tcaacctata atgggaatgg attatatgat
     4561 caagcggtta ttattcttat atgttgcttt attgttctta tcagaaggtg cttatgcatc
     4621 tgtaacagta ttcattgctc caagttggga aaggaataca gattcagtta a
//
