LOCUS       CP057702                2567 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB17-C09 plasmid pRHB17-C09_7, complete
            sequence.
ACCESSION   CP057702
VERSION     CP057702.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148144
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2567)
  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 2567)
  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                     :: RH03 T2-C09
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 84.5809268322776x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:12:56
            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)                     :: 5,029
            CDSs (total)                      :: 4,911
            Genes (coding)                    :: 4,700
            CDSs (with protein)               :: 4,700
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 104 of 211
            Pseudo Genes (incomplete)         :: 105 of 211
            Pseudo Genes (internal stop)      :: 43 of 211
            Pseudo Genes (multiple problems)  :: 38 of 211
            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..2567
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB17-C09"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB17-C09_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            362..829
                     /locus_tag="HVX27_25115"
     CDS             362..829
                     /locus_tag="HVX27_25115"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="SHOCT domain-containing protein"
                     /protein_id="QML81002.1"
                     /translation="MYFYVLGGAIPALIVFFSYLAMRKECNLKPIEKSKDYISVYMLLT
                     AALVLFLFVYKAGMFRRGGDYFLLVFVFILLYVYHLAFHKLWLRTIDENSSIIIENGIF
                     NFNRKNASVGFSRKDVNNIDTLLKLNEARKEGIISEDEFNKLKKRLNILDD"
                     /name="SHOCT domain-containing protein"
     gene            complement(1087..1200)
                     /locus_tag="HVX27_25120"
     CDS             complement(1087..1200)
                     /locus_tag="HVX27_25120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QML81003.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            1797..1946
                     /locus_tag="HVX27_25125"
     CDS             1797..1946
                     /locus_tag="HVX27_25125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QML81004.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          1563..1689
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.094"
                     /coverage="100.0"
                     /evalue="7.479999999999999e-52"
     Typing          complement(1092..1596)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.083"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 cccggctgaa tggcgtgaat ttccgcacta tgcacttgcg cgcatactca tgcatgccgt
       61 aaaaacagag actgcgcgtt tctggcgggt tttcgggtgg tttgttgcct gttttaccgg
      121 tttcccgtca gaaacgccct cagagcctct caggcggtgc acgcaagggg tgttatggta
      181 aatgccccat attcagttac tgcttttcta ttttttgaaa taatattaat atcaggcgat
      241 tgattttaaa ttaattaact atgattgaat ggtggtgatt tatgcgcgaa cggtatttaa
      301 ataaaatatc taattttgat acggcaagaa tagtgttgtt tatagccatt caaattatct
      361 cttgtatttt tatgttctgg ggggggctat tcctgccttg attgtttttt tctcatattt
      421 agccatgagg aaggaatgta atttaaagcc gatagagaag tctaaggatt acatatccgt
      481 ttacatgctt cttacagccg ctttggtact gtttcttttc gtgtataaag ctggcatgtt
      541 tagaaggggc ggtgattatt tccttctcgt ttttgttttt attttgcttt atgtttacca
      601 tctcgctttt cataaattat ggttgcgaac gatagatgaa aactcatcaa taataattga
      661 aaacgggatt tttaatttta atcgtaaaaa tgcatctgta ggatttagtc ggaaagatgt
      721 aaataacatt gatactcttc ttaaattaaa tgaggctaga aaagaaggta ttataagtga
      781 agatgagttt aataaattaa aaaaaagact aaatattctt gacgactgat ttttttgcta
      841 actaaaggta aagcaagctt atgaatcttt gataagattg aatatcttct tgtcattgat
      901 tttttatcgt cgtaatcttc ttccctgcaa acgaaaaaac cacccggcaa ggtggttttt
      961 cgaaggttcg caagagttga cgctcttttg aaccgcggta actggcttgg aggagcacag
     1021 tcaccaaaac ttgtcctttc agtttagcct taaccggcgc atgacttcaa gactaactcc
     1081 tctaaatcag ttaccagtgg ctgctgccag tggtgctttt gcatgtcttt ccgggttgga
     1141 ctcaagacga tagttaccgg ataaggcgca gcggtcggac tgaacggggg gttcgtgcat
     1201 acagtccagc ttggagcgaa ctgccttccc ggaactgagt gtcaggcgtg gaatgagata
     1261 aacgcggcca taacagcgga atgacaccgg taaaccgaaa ggcaggaaca ggagagcgca
     1321 cgagggagcc gccaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc
     1381 actgatttga gcgtcagatt tcgtgatgct tgtcaggggg gcggagccta tggaaaaacg
     1441 gctttgccgc ggccctgtcg cttccctgtt aagtctcttc ctggcatctt ccaggaaatc
     1501 tccgccccgt tcgtaagcca tttccgctcg ccgcagtcga acgaccgagc gtagcgagtc
     1561 agtgagcgag gaagcggaat atatcctgta tcacatattc tgctgacgca ccggtgcagc
     1621 cttttttctc ctgccacatg aagcacttca ctgacatcct catcagtgcc agcatagtaa
     1681 gccagcatag taagccagca tagtaagcca gtatacactc cgctagcgct acgtgactgg
     1741 ttcagggctg cgccccgaaa cccgctaaca acctctctgc tactggatat caccccatgc
     1801 catctgaata tgatgaacaa cggggttcga ctgatacgca gcttcccggc gaatatgacc
     1861 tttttgattt aatggcgaag gttactgaag agatcctgca tgcccctgtg gattctgggc
     1921 cgcctgtcgg ccgggaagcg ttatagcttt ttcgcttgcc cgcgtacgtg gtaatacgcc
     1981 ggtattacct tttatttctt tattttcatg taattacagt gggtttttaa tacctgggta
     2041 ttactcgtga aaacgaaaca ttcctttttt ttcttttaat tcatgcagtt gcgatgaaaa
     2101 tcgcggctgc gttaggtgta tgaccatttt gaggttgaaa aataatcaac catggagggt
     2161 gatttacgca ggttaagggg agatcgtgac aaaaaaagcg ttcctcactg tatcgttcat
     2221 gcctgcatga acgggttatt cttcctgact acagaattac atcgctcctt cagttcatac
     2281 atcactttta caacactttt acaacactcc ttcggcctgt acatcacctt tacaacactt
     2341 ttgcatcact tttacatcat ttatacatca cttttacatc attccttcag ctcatacgtc
     2401 acttttacgt cagttccatc ctctgtgcca tttgtacatc cgcccccctt cctgaacgtg
     2461 ctgaaaacgg tttttccggc tgtgccggca acgcctcacg gccacgcaat aaattgcgtc
     2521 cccgttcacc gttttcgggt aagaagaaca tcggaaacag gacttac
//
