LOCUS       CP057467                4672 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB25-C23 plasmid pRHB25-C23_3, complete
            sequence.
ACCESSION   CP057467
VERSION     CP057467.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148243
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4672)
  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 4672)
  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                     :: RH08 T2-C23
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 162.263745180163x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 08:50:44
            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)                     :: 4,942
            CDSs (total)                      :: 4,823
            Genes (coding)                    :: 4,665
            CDSs (with protein)               :: 4,665
            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)              :: 158
            CDSs (without protein)            :: 158
            Pseudo Genes (ambiguous residues) :: 0 of 158
            Pseudo Genes (frameshifted)       :: 57 of 158
            Pseudo Genes (incomplete)         :: 90 of 158
            Pseudo Genes (internal stop)      :: 33 of 158
            Pseudo Genes (multiple problems)  :: 21 of 158
            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..4672
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB25-C23"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB25-C23_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            5..433
                     /gene="exc2"
                     /locus_tag="HVY26_24685"
     CDS             5..433
                     /gene="exc2"
                     /locus_tag="HVY26_24685"
                     /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="QMH75623.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            1264..1455
                     /locus_tag="HVY26_24690"
     CDS             1264..1455
                     /locus_tag="HVY26_24690"
                     /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="QMH75618.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2441..2572)
                     /locus_tag="HVY26_24695"
     CDS             complement(2441..2572)
                     /locus_tag="HVY26_24695"
                     /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="QMH75619.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(2584..3063)
                     /locus_tag="HVY26_24700"
     CDS             complement(2584..3063)
                     /locus_tag="HVY26_24700"
                     /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="QMH75620.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            complement(3146..3904)
                     /locus_tag="HVY26_24705"
     CDS             complement(3146..3904)
                     /locus_tag="HVY26_24705"
                     /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="QMH75621.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            4158..4595
                     /locus_tag="HVY26_24710"
     CDS             4158..4595
                     /locus_tag="HVY26_24710"
                     /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="QMH75622.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     Typing          1622..2169
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcgcatgaaa cgttctggcg gcacacgcta tatgtatctt agcgccctga taactgtgtc
       61 agcagccctc acagcctgta ccccaaaaac cagcctggaa caacataccc ggcattatgt
      121 ttatgcttca gatgatgggt tcgatcctaa cttctacacc aagaaagctg acaccacacg
      181 gatgatgatt ccgttctttc agcagttcag ggagatgggg gtgaaagaca aagcagccgg
      241 agtatcagca gaaacggcac agcaacgcat aaaagaattc cactctgaag aattccttca
      301 gtcactgaga accacaacca cctttgcggg cagaaaatac acgaacagtg atatgccatc
      361 accggaaaaa atgaagctgc tggctgacac gatttctgcg atttatctcg atggctacga
      421 gggaagacag taagtggatt taccataatc ccttaattgt acgcaccatt aaaacgcgtt
      481 gagcgcgatt ctgacgcagg cacagcaaaa agaaatgttt acccccagga aaaccggaaa
      541 aatgcgtcag gatcgttttc agggcgttgc atgactatgc acgaaactga atagcgatct
      601 gtttgggcgc atacggtgcc catgaggcac attttcggac attttcagtt cgtgaatccc
      661 tggctcattg ctacatatcc gggcagacac ccctggcagc gcccccaggg gtgttatgta
      721 aaaaaaggcg acgcgcccct aggggcgccc ctacattaat taactgtttt ttctacagat
      781 agtcagtact gaccctaagc agggtcgtca tagcgtcgcc atagggtcgt cgacgacgtg
      841 cttttgtata aatctgaata agaaaataca tttttaaaac cataacaaca tgatttaaaa
      901 agcaaatcag caaaaagttg gttttgcgtg gggtgtggac atttcagaca tgagaacaga
      961 ctcgcgtttt tccggagtat cagcggaata tctgattaaa aaacactcgc cgcagagcgc
     1021 gattttatgc aacagcggct gtactgcaca gggattattt atcagttgat atgctgtgcc
     1081 atgatattgc tattgccgaa agggacgtcg ttttacggcg ttttccctat cctgcatcgc
     1141 actggccgcg ttcgaatgtt tgcgcccctg actaaccgct cactcagctt tatcactctc
     1201 gcctgcgtca cagttatcat gctcccatga acagaaattc ccttacacgg agacatcaga
     1261 ccagtgacca aacaggaaaa aaccgccctg aacatggccc gcttcatcag aagccagaca
     1321 ttaaccctgc tggagaagct caacgaactg gacgcggatg aacaggcaga catctgtgaa
     1381 tcgcttcacg accacgccga tgagctttac cgcagttgcc tcgcacgttt cggggatgac
     1441 ggtgaaaccc tctgacatat gcagctcccg gagacggtca cagcttgtct gtgagcgaat
     1501 gccgggagca gacaagcccg tcagggcgcg tcagcgggtt ttagcgggtg tcggggcgca
     1561 gccatgaccc agtcacgtag cgatagcgga gtgtatactg gcttaatcat gcggcatgtc
     1621 cggtgtgaaa tgccgcacag atgcgtaagg agaaaatgcc agtataggcg ctcttccgct
     1681 tcctcgctca ctgactcgct acgctcggtc gttcggctgc ggcgagcggt gtctactcac
     1741 tcaaaagctg taatacagtt atccacagaa tcaggggata atgccggaaa gaacatgtga
     1801 gcaaaaaggc aaaaccaggg caaaaggccg cgccgctggc gtttttccat aggctccgcc
     1861 cccctgacga gcatcacaaa aattgacgct caagtcagag gtggcgaaac ccgacaggac
     1921 tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc
     1981 tgccacttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata
     2041 gctcacgctg ttggtatctc ggcttggtgt aggtcgttcg ctccaagctg ggctgtgtgc
     2101 acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca
     2161 acccggtaag acacgactta acgccactgg cagcagccac tggtagagga tgtacaagaa
     2221 attgctgata cgtagttctt gaagtgaagg accgactgcg gctacactga aaggacagat
     2281 ttggtggcag cggtcttgta caccctgtta cctcgggtta gaaagcctga gaaacttcta
     2341 accttcgaaa gaacccacgc ctgagaacgt gggttttttc gtttacaggc agcagattac
     2401 gcgtagaaaa aaaggatctc aagaagatcc tttaatcttt ttacctaatt tcgattccag
     2461 tagctgctga gctagaagat ggcgcaacag tccctccttg aacatccctg atataatttg
     2521 cctgacagcc gggcaatatt aaaattagcg cacaaaaaac caaaccacgc atagaattgt
     2581 attttatctc cccataacaa tgatcatatc aattgataac aaaccatttg actttatttt
     2641 ctcaggaaat aaaagtgacg gatcgttatc aacaatactt tgtatttctc tatacagttt
     2701 tttacagtct aatgatgagt tttccgccaa tgagtttaac aaaacaacat ctggaggctc
     2761 aatatcttta acacctgtac ttcctgttgt tatcgataat ttacaaactc ccttcccatt
     2821 aaagttaatt agttttttct ggatataatc tcgatatacc cctaactcct tcctaatagg
     2881 ttctacatat gcttgatcga tgacatggtt attactattt atatcatcaa tatatttata
     2941 tatctcatta actgaatctg tattcctttc ccaacttgga gcaatgaata ctgttacaga
     3001 tgcataagca ccttctgata agaacaataa agcaacatat aagaataata accgcttgat
     3061 catataatcc attcccatta taggttgatg tatttcatct ttaatataag atgaaataca
     3121 tctcatatct atatgttatg gtctattaat gtttatcccg caactgatct gctgtatcct
     3181 tgtttctctg atcgcctcgt tgatgaagat ttcgatggct ttcacgtgct gcagactccc
     3241 aatccccacg gttcacagca gcattaaagt tcggaaagtt tctcgatagc ttaggaattc
     3301 ctaagttaaa tcccatatcc actaaggcag tttttctaga gttagaaaaa ccatcataac
     3361 cagaatataa agaacgcaag cctttctctg tagtctgaac atcggaaata cataatccaa
     3421 taacagcatc atttgataaa tgcaagttca ttggtacttg tctagagtct tttttaaagt
     3481 tattaaaagc atcggttatt tctttttttg atgctgcaac ttctttttcc atatcatcac
     3541 catgaccatg ccatgtatga gttcttgtaa aagggagaga tgccgccata tctggcgtag
     3601 atagcaaatg accaatacca acagtaatat taccttcgct atccttatac atggtgtttt
     3661 tgaacccctc atgggctttt aaattattaa cacacatgct catatagtag ccattatagt
     3721 ttctggtaga tggtatacta atatgtgtct tatcagaaat accttcatgg cgatttcccc
     3781 cattaccacc agaatgagca ccataaccgc tatggctgtc cccatcataa ctatgaattg
     3841 ttccataggg agtattgtga tcatgccacc ccggaccttg attagaattt tcaataccac
     3901 tcatcttaat ttcctctttg acatttaaaa caacgatcaa tacaactgta tatataacca
     3961 ctggttttat atacagttta aaattacgcc gctgcgtttt ccctgtcaac cctgtggatt
     4021 ttcatttttg tgaaaacggt caaaaaaaca gccactcaca ccatgtgcca tccccgccag
     4081 atgccacaaa aaccagcaca aacattaccg ttctccggcc tcagtatgtt ttactgagac
     4141 catgagatga gacacctatg ggacactgtc actttatggc atggcacaca ctccgggacg
     4201 cactgaaaat gacgggcaga tcgcgttcac agttttaccg tgatatgcgc gcaggccttg
     4261 tcagttaccg tacaagccag gacggacgac gggagtttga aactagtgaa ctgatccggg
     4321 catacggcga attaaagcgg aatgagacac cagaaaggca cacagcggga caggcagaaa
     4381 aacctcatga tcagcagaca gaacgcattc tccgggagct gaacgagctg aaacaatgcc
     4441 tgacgctgat gcttgaggat aaacaagccc aggatacgga gcgccggcgc caggaagcag
     4501 aacgggaaca actacagaat gagatagccc agctcaggca ggcgctggag caggaaagga
     4561 aacggggatt ctggtcccgg ttgtttggtc gctgaacgct gtcagagact gatgataaga
     4621 tagtcttctg ataataactc accgaaaata aatacattta aggtaaggag ac
//
