LOCUS       CP056944                2590 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB42-C04 plasmid pRHB42-C04_5, complete
            sequence.
ACCESSION   CP056944
VERSION     CP056944.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148434
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-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 151.53365995679x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:47:40
            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)                     :: 4,795
            CDSs (total)                      :: 4,673
            Genes (coding)                    :: 4,575
            CDSs (with protein)               :: 4,575
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 98
            CDSs (without protein)            :: 98
            Pseudo Genes (ambiguous residues) :: 0 of 98
            Pseudo Genes (frameshifted)       :: 48 of 98
            Pseudo Genes (incomplete)         :: 46 of 98
            Pseudo Genes (internal stop)      :: 25 of 98
            Pseudo Genes (multiple problems)  :: 18 of 98
            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-C04"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB42-C04_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(386..1375)
                     /locus_tag="HV017_23960"
     CDS             complement(386..1375)
                     /locus_tag="HV017_23960"
                     /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="QMA86058.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEILNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          complement(300..383)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.941"
                     /coverage="93.0"
                     /evalue="1.22e-26"
     Typing          1948..2029
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="93.0"
                     /evalue="3.4000000000000004e-27"
     Typing          469..660
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 ttatgaaaat agtcagtacc acccctacaa agcggtgtcg gcgcagctac aacaccgcgc
       61 cgacaccgct tttttaaata tcacaaagag agcaagagaa actaatttgt cataactctc
      121 tatttataaa gaaaaatcag caaaaaattg tttttgcgtg gggtgtgggc attccaggca
      181 tgagaacaga ctcgcgtttt tccggagtat cagcggaatt cttgattaag aaacactcga
      241 cgcagagcga aattttatgc aacagcggct gtactgcaca aggattattt atcagttgaa
      301 acaggacagg atgtgtaatt gtaataccgt cacacgcgac gctatcacaa ttaccacctg
      361 gtcagggctg cgccccgaca ccctgctagt ctgattcagt tttatctttc gtcggtgagc
      421 ggcggtactt tctgacctcg gttttccatt cgaacgcgat gcgtgaaccg tcatcgtcgc
      481 cctcggaaat atcatctccg atcaccatgt cggcgtcggt ttcctgatcg agtttcagca
      541 catctttgag tgcgccgccg gtcgccacaa agcggcgctt gtgcgtctgg cgagtcagtt
      601 cgaggaacca ttcaggatcg gccaccatgt cagccggctt cgtggaatat ttcagggttt
      661 cggccactgc gccgcgcacc agttcagcgg tcgcgcaggc taaggactcg ccatccttcg
      721 gcttgcgggg tttcactgcc cggacatcaa cattcgggtc ataatcaacc cgcaggcact
      781 cccgccatag ctcaacccag cgttcatgcc tgacgtaact tttcccattt agcatgccag
      841 gaggagccat catcaaggta tggaagtgcg ggtgtgcgct gccgtcgctg ccgcgggtaa
      901 cttccgttgt gcggatccag ccctgaacag gcaggaactc cttgcgaacc ttcatacgct
      961 gaaaagctgc attcatccgg ttcagtatct cgcccagttc cccaatcgca cagttgcgca
     1021 cggtcagggt caggaacatc cagcgggcat cgggataatc cgccacgata cgcggcaggg
     1081 actggtagaa acgggcttgc cacatcaggg agcgcctcca ctggcagaca ggacagtgcc
     1141 ggacacggca gaaatgtgcc tcacgcagcc tcagacgcgt ttctccggtt tccttgaggg
     1201 tagaccaccc gaaacgcagt aaaccgccac aggaagccat acgagccccg tagtgctcat
     1261 attcggccgc aagcaggtaa atccctccca cgtcgtcaga aacgcttctg tgtgcgtccc
     1321 agggcgcatc agagggggaa taatcagtga ggtactggag tttagggttt tgcatgcaca
     1381 ccgccccata ctgggcgatg gctcgattga cgtgttatca ttgccatatc acctgttgct
     1441 ctcatcatga atccagtttc tgcaggtggt cacacccccg aacgatgccc gtcgttgcgg
     1501 gggtcacttt taacgcaacc actcccgaca gaataactcc aaaaccattt tccggcaaat
     1561 cccccctcag gccttgcggc acaagggctg gaggcgaatt tgaatcctag agttatccct
     1621 taagtataaa tacaaggatc acgcgcgaga tttgcttgaa ttttgagctg gattttcagt
     1681 aaccaaaaac ctcccaaccc cacccactta cacccatctc atccacagac tttcaccccg
     1741 attttgtgaa caacaaaaaa ccgtcttgca ggtggttggc ctcactccgt gacaccaacc
     1801 accatcccca gtgttttccc cgtgccgtcg tcaatcacaa aatcggaacc cacgccagag
     1861 gcgcggggcc ccgcgatttt ctgtttgacg agttcgggaa cggtgagcgg tacgcggaat
     1921 tttttcgcgg gccgtgaggc gttggcgggg tgtcggggcg cagccctgac caggtggtaa
     1981 ttgtgatagc gtcgcgtgtg acggtattac aattacacat cctgtcccga aaattcccgc
     2041 cgtttctcgg ttttttgagc gtcgcagacc gcacgacaaa cgaaacgaag tgaagtttgt
     2101 ataagtgcgc acttcgtgag attccctgac tgccagtttg tcgatcacgc ggaacggctg
     2161 cggcacaaaa acggcaaaat gatttgctgt ccggtcgcca gaatttggcg cgtcggtggc
     2221 gatggctgta cggaacggga acgaccgcgg ggtggggcgc gtggtgtaag gacttgttac
     2281 gcgcaccgct aaaacgcgct gaacgcgatt ctgccgcgaa caccgcaaaa agggatgttt
     2341 tccccagggt aaaccggaaa aatgcgtcag gaacgttttc agcgcgttgc atgactatgc
     2401 atgaaactga atggcgatcg gtttgggcgc atacagtgcc catgagacat attttcggac
     2461 attttcaatt cgtgaatccc tgactcattg ctacatatct gaacagacac ccctagcagc
     2521 gcccccaggg gcgtcctgta aaaaaacaca ccgcgccgct agcagtaccc ctaatataaa
     2581 attatgtttt
//
