LOCUS       CP057544                3257 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C06 plasmid pRHB23-C06_6, complete
            sequence.
ACCESSION   CP057544
VERSION     CP057544.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148213
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3257)
  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 3257)
  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                     :: RH12 T2-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 126.333533647315x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:57:35
            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)                     :: 4,801
            CDSs (total)                      :: 4,685
            Genes (coding)                    :: 4,615
            CDSs (with protein)               :: 4,615
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 70
            CDSs (without protein)            :: 70
            Pseudo Genes (ambiguous residues) :: 0 of 70
            Pseudo Genes (frameshifted)       :: 31 of 70
            Pseudo Genes (incomplete)         :: 27 of 70
            Pseudo Genes (internal stop)      :: 22 of 70
            Pseudo Genes (multiple problems)  :: 10 of 70
            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..3257
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB23-C06"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C06_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(935..1216)
                     /locus_tag="HVX96_23995"
     CDS             complement(935..1216)
                     /locus_tag="HVX96_23995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586174.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="QMJ53560.1"
                     /translation="MIINIKHKGLRKFAETGNNAGIPQQFTQRLKLILTALSTATNLQD
                     MMDLKALRCHPLKGDRQGEYSLEVNGNWRVVFKLEEPNVFDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1561..1857
                     /locus_tag="HVX96_24000"
     CDS             1561..1857
                     /locus_tag="HVX96_24000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609270.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antidote protein"
                     /protein_id="QMJ53561.1"
                     /translation="MINLVDPVHPGVFIREMFMEPFEISAADLSEKLHVSPSTLSRVLN
                     GKADLSVEMALRLSRVLGRSAESWINMQTQYSLNASRKSPNVIKELDELVPIF"
                     /name="HigA family addiction module antidote protein"
     gene            complement(2854..3048)
                     /locus_tag="HVX96_24005"
     CDS             complement(2854..3048)
                     /locus_tag="HVX96_24005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QMJ53562.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          51..306
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          2699..2781
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.619"
                     /coverage="100.0"
                     /evalue="8.2e-33"
     Typing          3085..3183
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(2129..2686)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.464"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aataattccg ctgatactcc ggaaaaacgc gagtctgttc tcatgcctga aatgcccaca
       61 ccccacgcaa aaacaatttt ttgctgattt ttctttataa atagagagtt atgacaaatt
      121 agttcttctt gctctctttg tgatatttaa aaaagcggtg tcggcgcggt gttgtagctg
      181 cgccaacacc gctttttagg ggtggtactg actattttca taaaaaacat cattttatat
      241 taggggtgct gctagcggcg cggtgtgttt ttttacagga cgcccctggg ggcgctgcca
      301 ggggtgtctg ttcagatatg tagcaatgag tcagggattc acgaactgaa aatgtccgaa
      361 aatgtgtctc atgggcaccg tatgcgccca aaccgatcgc cattcacttt catgcatagc
      421 tatgcagtga gctgaaagcg atcctgacgc atttttccgg ttttcgcttg gtaaaacatc
      481 tctttttgcg gtgttcgcgg cagaatcgcg ttcagcgcgt tttagcggtg cgcgtaatgc
      541 gacgttatgg taaatgctgt gatttgcggg atggttttat ctatgttgat atcaatacca
      601 cctcttatgg aggtggctta caccgatttt tccttgttgt ctgtttcaga acagatagag
      661 gcttttttgg caattatcca accactattg atagtgttta ttactactta gataactgag
      721 cctttactgt atctgcccct gcaagcagga acccaacagt taagaaccac ccccagccat
      781 tgataccttt tagcgctaga attgctgcgc aaatgatggc tgctataggg actatctggt
      841 acagaaaata cttcatataa cttaccccga ggttttgctt ttttatgaga ccctaaagca
      901 tcgatactgt cactttgatg ctttaaggac cttcttagtg ataatcctcg agatccacgt
      961 caaagacgtt aggttcttcg agcttaaaca ctacgcgcca gtttccattg acctctaacg
     1021 aatactctcc ttgacggtct cccttcaatg gatggcagcg caatgccttt aaatccatca
     1081 tatcctgcaa gttcgtcgct gtgcttaagg ctgttaggat cagcttcaga cgttgagtaa
     1141 actgttgcgg aattcctgcg ttgttacctg tttcggcaaa cttacgcaaa cctttatgct
     1201 tgatatttat gatcattaat caccatccca tatttgttta gatagaaaca tcgcagttta
     1261 tttttccggt tcatccgtat ttccattgca aaccccttgc tctatttgaa taaatgacgt
     1321 aggttttact taaccaagtc gcattttaat ctgttgacat tggtttgatg cgctgtacaa
     1381 tgccggggcc ttgaatttca catcaagtac ccacatcata aggaatgatt agacgcacca
     1441 atgtgcatca taatgtcatt ctttttttta gtcaacaatg agttgcgtta tgcgcaatgc
     1501 gcaatctgaa aacgcaatag gcctatcttt ttaaaactaa tataggcttc agaggaaggt
     1561 atgattaatc ttgtcgatcc agtgcatcca ggggttttta tccgtgagat gtttatggaa
     1621 ccgtttgaaa tatcagccgc ggacctgtct gaaaaactgc atgtatcacc ttccactcta
     1681 agtagagtgc tgaatggaaa agctgattta agtgttgaga tggcattaag gctttctcga
     1741 gttcttggtc gcagtgccga gtcgtggata aacatgcaga ctcaatacag tcttaacgcg
     1801 agcaggaagt cacctaatgt cattaaggaa ttagatgaat tggttcctat attttgagaa
     1861 aagaaaaggc cgctatatgc ggcctttttc tgtcttgact ctcaggcaac tggatcgtat
     1921 cgtttctcgt aaacgaaaaa accacccggc aaggtggttt tttcgaaggt tcagtaaccg
     1981 gcaagtttct gaaccagggt aactggcttg gaggagcgca gtcaccaaaa cttgttcttt
     2041 cagtttagcc ttaactggcg cataacttca agactaactc ctctaaatca gttaccagtg
     2101 gctgctgcca atggtgtttt gcatgtcttt ccgggttgga ctcaagatga tagttaccgg
     2161 ataaggcgca gcggtcgggc tgaacggggg gttcgtgcac acagcccagc ttggagcgaa
     2221 cgacctacac tgaaccgaga tacctacagc gtgagctatg agaaagcgcc acgcttcccg
     2281 aagggagaaa ggcggacagg tatccggtaa gcggcagggt cggaacagga gagcgcacga
     2341 gggagccacc agggggaaac gtctggtatc tttaagtcct gtcgggtttc gccacctctg
     2401 acttgagcgt cgatttctgt gatgctcgtc aggggggcgg agcctatgga aaaacgcctg
     2461 cggcgcggcc ttcttcctgt tcttggtctt ttgctcacat gttctttccg gccttatccc
     2521 ctgattctgt ggataaccgt gctgccgttt ttgtgtaagt cagtaccgct cgccgcagcc
     2581 gaacgaccga gcgtagcgag tcagtgagcg aggaagcgga aaagcgcctg gacgcgcatt
     2641 ttctccttac gcatctgtgc ggaatttcac acccggcatg gggcactttt catacaatct
     2701 gcactgatgt cacatagtta agccagtata cactccgcta tcgctacgtg actgggtcag
     2761 ggcttcgccc cgacacccgc tgacgcgccc tggcgggctt gtctgctgcc gaaaacgctc
     2821 gcggacaagc cgtgagcgcc tccgtcagct tcgttatgtt cctgtttcac tttcggtctc
     2881 aaagcgaacc tggatgctgt tctggagttc ttccgcgagt tcgtgcagtc gttcgcacat
     2941 ggccgcctgt tcgtcggcat ccagagcatc cagtttttca agcagtgtca ggctctggct
     3001 tttgataaat cgcgccatat tcagcgcagt ttgttgctgt ttgttcacct tccgttgttc
     3061 tccgtcagta ccgggtgtcg ggtggaccct gaccaggtgg taattgtaag acgttgcggg
     3121 cgacggtatt acaattgcac atcctgtcct gtttttttag gacgtatcat ggcacagcat
     3181 atcaactgat aaataatccc tgtgcagtgc agccgctgtt gcataaaatt tcgctctgcg
     3241 tcgagtgttt cttaatc
//
