LOCUS       CP056950                2590 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB42-C02 plasmid pRHB42-C02_4, complete
            sequence.
ACCESSION   CP056950
VERSION     CP056950.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148433
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2590)
  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 2590)
  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 T3-C02
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 162.772649593351x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:36:45
            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)                     :: 4,844
            CDSs (total)                      :: 4,724
            Genes (coding)                    :: 4,611
            CDSs (with protein)               :: 4,611
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 45 of 113
            Pseudo Genes (incomplete)         :: 67 of 113
            Pseudo Genes (internal stop)      :: 24 of 113
            Pseudo Genes (multiple problems)  :: 21 of 113
            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..2590
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB42-C02"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB42-C02_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            860..1849
                     /locus_tag="HV016_24220"
     CDS             860..1849
                     /locus_tag="HV016_24220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="QMA90671.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          complement(207..288)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="93.0"
                     /evalue="3.4000000000000004e-27"
     Typing          1853..1936
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.941"
                     /coverage="93.0"
                     /evalue="1.22e-26"
     Typing          2062..2317
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(1576..1767)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 tccgtacagc catcgccacc gacgcgccaa attctggcga ccggacagca aatcattttg
       61 ccgtttttgt gccgcagccg ttccgcgtga tcgacaaact ggcagtcagg gaatctcacg
      121 aagtgcgcac ttatacaaac ttcacttcgt ttcgtttgtc gtgcggtctg cgacgctcaa
      181 aaaaccgaga aacggcggga attttcggga caggatgtgt aattgtaata ccgtcacacg
      241 cgacgctatc acaattacca cctggtcagg gctgcgcccc gacaccccgc caacgcctca
      301 cggcccgcga aaaaattccg cgtaccgctc accgttcccg aactcgtcaa acagaaaatc
      361 gcggggcccc gcgcctctgg cgtgggttcc gattttgtga ttgacgacgg cacggggaaa
      421 acactgggga tggtggttgg tgtcacggag tgaggccaac cacctgcaag acggtttttt
      481 gttgttcaca aaatcggggt gaaagtctgt ggatgagatg ggtgtaagtg ggtggggttg
      541 ggaggttttt ggttactgaa aatccagctc aaaattcaag caaatctcgc gcgtgatcct
      601 tgtatttata cttaagggat aactctagga ttcaaattcg cctccagccc ttgtgccgca
      661 aggcctgagg ggggatttgc cggaaaatgg ttttggagtt attctgtcgg gagtggttgc
      721 gttaaaagtg acccccgcaa cgacgggcat cgttcggggg tgtgaccacc tgcagaaact
      781 ggattcatga tgagagcaac aggtgatatg gcaatgataa cacgtcaatc gagccatcgc
      841 ccagtatggg gcggtgtgca tgcaaaaccc taaactccag tacctcactg attattcccc
      901 ctctgatgcg ccctgggacg cacacagaag cgtttctgac gacgtgggag ggatttacct
      961 gcttgcggcc gaatatgagc actacggggc tcgtatggct tcctgtggcg gtttactgcg
     1021 tttcgggtgg tctaccctca aggaaaccgg agaaacgcgt ctgaggctgc gtgaggcaca
     1081 tttctgccgt gtccggcact gtcctgtctg ccagtggagg cgctccctga tgtggcaagc
     1141 ccgtttctac cagtccctgc cgcgtatcgt ggcggattat cccgatgccc gctggatgtt
     1201 cctgaccctg accgtgcgca actgtgcgat tggggaactg ggcgagatgc tgaaccggat
     1261 gaatgcagct tttcagcgta tgaaggttcg caaggagttc ctgcctgttc agggctggat
     1321 ccgcacaacg gaagttaccc gcggcagcga cggcagcgca cacccgcact tccatacctt
     1381 gatgatggct cctcctggca tgctaaatgg gaaaagttac gtcaggcatg aacgctgggt
     1441 tgagctatgg cgggagtgcc tgcgggttga ttatgacccg aatgttgatg tccgggcagt
     1501 gaaaccccgc aagccgaagg atggcgagtc cttagcctgc gcgaccgctg aactggtgcg
     1561 cggcgcagtg gccgaaaccc tgaaatattc cacgaagccg gctgacatgg tggccgatcc
     1621 tgaatggttc ctcgaactga ctcgccagac gcacaagcgc cgctttgtgg cgaccggcgg
     1681 cgcactcaaa gatgtgctga aactcgatca ggaaaccgac gccgacatgg tgatcggaga
     1741 tgatatttcc gagggcgacg atgacggttc acgcatcgcg ttcgaatgga aaaccgaggt
     1801 cagaaagtac cgccgctcac cgacgaaaga taaaactgaa tcagactagc agggtgtcgg
     1861 ggcgcagccc tgaccaggtg gtaattgtga tagcgtcgcg tgtgacggta ttacaattac
     1921 acatcctgtc ctgtttcaac tgataaataa tccctgtgca gtacagccgc tgttgcataa
     1981 aatttcgctc tgcgtcgagt gtttcttaat caagaattcc gctgatactc cggaaaaacg
     2041 cgagtctgtt ctcatgcctg aaatgcccac accccacgca aaaacaattt tttgctgatt
     2101 tttctttata aatagagagt tatgacaaat tagtttctct tgctctcttt gtgatattta
     2161 aaaaagcggt gtcggcgcgg tgttgtagct gcgccgacac cgctttgtag gggtggtact
     2221 gactattttc ataaaaaaca taattttata ttaggggtgc tgctagcggc gcggtgtgtt
     2281 tttttacagg acgcccctgg gggcgctgct aggggtgtct gttcagatat gtagcaatga
     2341 gtcagggatt cacgaattga aaatgtccga aaatatgtct catgggcact gtatgcgccc
     2401 aaaccgatcg ccattcagtt tcatgcatag tcatgcaacg cgctgaaaac gttcctgacg
     2461 catttttccg gtttaccctg gggaaaacat ccctttttgc ggtgttcgcg gcagaatcgc
     2521 gttcagcgcg ttttagcggt gcgcgtaaca agtccttaca ccacgcgccc caccccgcgg
     2581 tcgttcccgt
//
