LOCUS       CP058109                2590 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB01-C04 plasmid pRHB01-C04_6, complete
            sequence.
ACCESSION   CP058109
VERSION     CP058109.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147948
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                     :: RH11 T1-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 115.102049370518x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 14:38:15
            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)                     :: 4,859
            CDSs (total)                      :: 4,740
            Genes (coding)                    :: 4,643
            CDSs (with protein)               :: 4,643
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 97
            CDSs (without protein)            :: 97
            Pseudo Genes (ambiguous residues) :: 0 of 97
            Pseudo Genes (frameshifted)       :: 47 of 97
            Pseudo Genes (incomplete)         :: 42 of 97
            Pseudo Genes (internal stop)      :: 23 of 97
            Pseudo Genes (multiple problems)  :: 15 of 97
            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="RHB01-C04"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB01-C04_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(1843..2590,1..242)
                     /locus_tag="HVV31_24280"
     CDS             join(1843..2590,1..242)
                     /locus_tag="HVV31_24280"
                     /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="QMR37932.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          246..329
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.941"
                     /coverage="93.0"
                     /evalue="1.22e-26"
     Typing          455..710
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(1190..1271)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="93.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(2..160)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.125"
                     /coverage="100.0"
                     /evalue="6.31e-73"
ORIGIN
        1 tggtggccga tcctgaatgg ttcctcgaac tgactcgcca gacgcacaag cgccgctttg
       61 tggcgaccgg cggcgcactc aaagatgtgc tgaaactcga tcaggaaacc gacgccgaca
      121 tggtgatcgg agatgatatt tccgagggcg acgatgacgg ttcacgcatc gcgttcgaat
      181 ggaaaaccga ggtcagaaag taccgccgct caccgacgaa agataaaact gaatcagact
      241 agcagggtgt cggggcgcag ccctgaccag gtggtaattg tgatagcgtc gcgtgtgacg
      301 gtattacaat tacacatcct gtcctgtttc aactgataaa taatccctgt gcagtacagc
      361 cgctgttgca taaaatttcg ctctgcgtcg agtgtttctt aatcaagaat tccgctgata
      421 ctccggaaaa acgcgagtct gttctcatgc ctgaaatgcc cacaccccac gcaaaaacaa
      481 ttttttgctg atttttcttt ataaatagag agttatgaca aattagtttc tcttgctctc
      541 tttgtgatat ttaaaaaagc ggtgtcggcg cggtgttgta gctgcgccga caccgctttg
      601 taggggtggt actgactatt ttcataaaaa acataatttt atattagggg tgctgctagc
      661 ggcgcggtgt gtttttttac aggacgcccc tgggggcgct gctaggggtg tctgttcaga
      721 tatgtagcaa tgagtcaggg attcacgaat tgaaaatgtc cgaaaatatg tctcatgggc
      781 actgtatgcg cccaaaccga tcgccattca gtttcatgca tagtcatgca acgcgctgaa
      841 aacgttcctg acgcattttt ccggtttacc ctggggaaaa catccctttt tgcggtgttc
      901 gcggcagaat cgcgttcagc gcgttttagc ggtgcgcgta acaagtcctt acaccacgcg
      961 ccccaccccg cggtcgttcc cgttccgtac agccatcgcc accgacgcgc caaattctgg
     1021 cgaccggaca gcaaatcatt ttgccgtttt tgtgccgcag ccgttccgcg tgatcgacaa
     1081 actggcagtc agggaatctc acgaagtgcg cacttataca aacttcactt cgtttcgttt
     1141 gtcgtgcggt ctgcgacgct caaaaaaccg agaaacggcg ggaattttcg ggacaggatg
     1201 tgtaattgta ataccgtcac acgcgacgct atcacaatta ccacctggtc agggctgcgc
     1261 cccgacaccc cgccaacgcc tcacggcccg cgaaaaaatt ccgcgtaccg ctcaccgttc
     1321 ccgaactcgt caaacagaaa atcgcggggc cccgcgcctc tggcgtgggt tccgattttg
     1381 tgattgacga cggcacgggg aaaacactgg ggatggtggt tggtgtcacg gagtgaggcc
     1441 aaccacctgc aagacggttt tttgttgttc acaaaatcgg ggtgaaagtc tgtggatgag
     1501 atgggtgtaa gtgggtgggg ttgggaggtt tttggttact gaaaatccag ctcaaaattc
     1561 aagcaaatct cgcgcgtgat ccttgtattt atacttaagg gataactcta ggattcaaat
     1621 tcgcctccag cccttgtgcc gcaaggcctg aggggggatt tgccggaaaa tggttttgga
     1681 gttattctgt cgggagtggt tgcgttaaaa gtgacccccg caacgacggg catcgttcgg
     1741 gggtgtgacc acctgcagaa actggattca tgatgagagc aacaggtgat atggcaatga
     1801 taacacgtca atcgagccat cgcccagtat ggggcggtgt gcatgcaaaa ccctaaactc
     1861 cagtacctca ctgattattc cccctctgat gcgccctggg acgcacacag aagcgtttct
     1921 gacgacgtgg gagggattta cctgcttgcg gccgaatatg agcactacgg ggctcgtatg
     1981 gcttcctgtg gcggtttact gcgtttcggg tggtctaccc tcaaggaaac cggagaaacg
     2041 cgtctgaggc tgcgtgaggc acatttctgc cgtgtccggc actgtcctgt ctgccagtgg
     2101 aggcgctccc tgatgtggca agcccgtttc taccagtccc tgccgcgtat cgtggcggat
     2161 tatcccgatg cccgctggat gttcctgacc ctgaccgtgc gcaactgtgc gattggggaa
     2221 ctgggcgaga tgctgaaccg gatgaatgca gcttttcagc gtatgaaggt tcgcaaggag
     2281 ttcctgcctg ttcagggctg gatccgcaca acggaagtta cccgcggcag cgacggcagc
     2341 gcacacccgc acttccatac cttgatgatg gctcctcctg gcatgctaaa tgggaaaagt
     2401 tacgtcaggc atgaacgctg ggttgagcta tggcgggagt gcctgcgggt tgattatgac
     2461 ccgaatgttg atgtccgggc agtgaaaccc cgcaagccga aggatggcga gtccttagcc
     2521 tgcgcgaccg ctgaactggt gcgcggcgca gtggccgaaa ccctgaaata ttccacgaag
     2581 ccggctgaca
//
