LOCUS       CP058056                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB03-C04 plasmid pRHB03-C04_5, complete
            sequence.
ACCESSION   CP058056
VERSION     CP058056.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147974
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2460)
  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 2460)
  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                     :: RH01 T1-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 97.290199326747x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:29:28
            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)                     :: 4,439
            CDSs (total)                      :: 4,319
            Genes (coding)                    :: 4,056
            CDSs (with protein)               :: 4,056
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 0 of 263
            Pseudo Genes (frameshifted)       :: 120 of 263
            Pseudo Genes (incomplete)         :: 121 of 263
            Pseudo Genes (internal stop)      :: 46 of 263
            Pseudo Genes (multiple problems)  :: 22 of 263
            CRISPR Arrays                     :: 3
            ##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..2460
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB03-C04"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB03-C04_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(1909..2460,1..465)
                     /locus_tag="HVV57_22185"
     CDS             join(1909..2460,1..465)
                     /locus_tag="HVV57_22185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001707479.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="QMQ68691.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            complement(564..794)
                     /locus_tag="HVV57_22190"
     CDS             complement(564..794)
                     /locus_tag="HVV57_22190"
                     /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="hypothetical protein"
                     /protein_id="QMQ68692.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     gene            complement(781..1284)
                     /locus_tag="HVV57_22195"
     CDS             complement(781..1284)
                     /locus_tag="HVV57_22195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMQ68693.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     Typing          2..462
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.455"
                     /coverage="100.0"
                     /evalue="1.53e-75"
ORIGIN
        1 cgcggcatcg agggaagccg cgccacgcat cagacagttc agcactacta cgaatcgata
       61 aaccgtggca cccgtagcca ggtatcgatc tcgccggagg cgctggagcc gcgtgtattg
      121 cggaagggca ttttcaccaa agacgtggaa gatcaggcag ccatagccaa acgtctaagc
      181 cacgcagtga acgatggctt tgcaggaacc atcgctatgg cctctcagag cgcccagaac
      241 gcaaaaagag cgcgtgagct acagaagact atggatgcgc agcagaaacg cctacagagc
      301 gttacagagc cttttaaggg gctttccaga gagcagatga ccgaaatcct gatgatggct
      361 cagcggttta agcagaaaaa ccaggaaaag gaaaaacagc agcgtattga acgtgaaaaa
      421 cagcgacaga cgcgatcgcg tggcatgggt ggtatggagc gttagttttg atgcgatgca
      481 ggatagggct aacgccgcaa agtgacgtca tttgcggcat tccagagatc aggttctgcc
      541 gccctgtata acgctgaggc cagctaatcc atcagatggt aattgtattt tttcaaaata
      601 gaaaaagctg cgtttttctg ctttggtgac aaacccttag ttgagtattt attaccgcta
      661 gttctacgat atatgctgta aacactgctt aaaaaagtac gctcccaaac agtcagaacc
      721 tcattctttt ttagtgaatc atgcagcatt agcctgtcta catttttaaa aagtttatct
      781 tcagcattca tcatccatta ccttcgtctg caccgttctt ccattggtgt cataactgat
      841 ctttaactca attttctttc ttctttcgta aattgatggc cagtctcccc gtgcaaaaag
      901 aaaggggtta gcttcaagtt ccccacgccc tgcccggaag aatatttgtt tatctacaag
      961 agccgcaatt atgtttttaa aggtctgata ttcaatatga accctgggct gtatggtttt
     1021 ttcaaatcta gtttttgata cagacacaaa cccatcccat ccaatcagca ttgccaattg
     1081 taaaagcaca tcattttgag attttgataa accatgaatc atcgcaatgt ctgcaatgta
     1141 tagcttgacg tagggaggtt cggctgggat ggaaaaggtc tcgatcttag agtcttgttt
     1201 tacctcaccg ttttcatcca tgtatgtatg ccgttcaagc ctagaaatct ttttcgtatt
     1261 cactccagcc ccacgtttcg ccatgattta gtactcgcat ttaagtacta aagagacata
     1321 cagtcaagtc ctttgcatca agtacgatta gtacttgagg tgagtacgat tagtccttga
     1381 ggtgagtacg attagtactt gaggtgagta cgattagtcc ttgaggtgag tacgattctt
     1441 cgctctagcc cttggtacaa gcgggttccc atatctatat ctatatatta agagggaaaa
     1501 taaaggctga aaaacgccat ttttaaacat cgaaaaacga gcttttttga gtctggagcg
     1561 tacggatttc tatgtccggg gagtggaaat tccgcttcct cgaacggaca gactcgcggc
     1621 gatgccgctc cctaatccgt tcttgcggcg agcggttcct gctctttcaa aaacgatatt
     1681 cattgcctga tttcgtcagg ggcgagcgaa gcgagtgcca tttacccttg acgactcacc
     1741 ggataaaaca ggcttggcag tggtgggggg tggcgcggag cgacgccttc cacctgccag
     1801 actgccgttg attttgacct tctggcagct tgctgcccga acgattttgc gtagcaaagt
     1861 ctagtgagta cactatcatc ctgatagtgg cccgccggag gcatcgcaat gcgatccccc
     1921 gactggctgg atgtacgcca gaacgagggg gtaagcatgg cgaattacgc gataatgcgc
     1981 tgcaaaaagc tgacgggaat gggcagtgtg gccagcgctt tgcagcactg ctacagggag
     2041 cgtgagacgc cgaatgctga cgctgaacgg acaccagaaa actactgctc tgtgtctcag
     2101 tcggcagatg aggcgatggg aaagctgcgg gagctgttgc cggaaaaacg ccgtaaagat
     2161 gcggtactgg ctgttgaata cgttatgacg gcaagccctg agtggtggaa cgaggccaca
     2221 ccgcggcagc aggcggagtt tttcgcccgc tctgagcaat ggctggagaa gaaatacggg
     2281 aaggatcgtg ttgtggcggc ggtggttcac cgggacgagg ccaccccgca cctgtctgcg
     2341 ttcgtggtgc cattgacgca ggatggacgg ctgtccgcga aagagtttat tggcgggcgg
     2401 tcaaagatgc gtgaagatca gagcacctac gctgaatcag taaaaaaact gggtcttgag
//
