LOCUS       CP057389                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB28-C05 plasmid pRHB28-C05_6, complete
            sequence.
ACCESSION   CP057389
VERSION     CP057389.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148267
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 T2-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 195.471565422958x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:41:04
            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)                     :: 4,443
            CDSs (total)                      :: 4,324
            Genes (coding)                    :: 4,061
            CDSs (with protein)               :: 4,061
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 263
            CDSs (without protein)            :: 263
            Pseudo Genes (ambiguous residues) :: 0 of 263
            Pseudo Genes (frameshifted)       :: 119 of 263
            Pseudo Genes (incomplete)         :: 122 of 263
            Pseudo Genes (internal stop)      :: 46 of 263
            Pseudo Genes (multiple problems)  :: 22 of 263
            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..2460
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB28-C05"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB28-C05_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(2290..2460,1..57)
                     /locus_tag="HVY50_22205"
     CDS             join(2290..2460,1..57)
                     /locus_tag="HVY50_22205"
                     /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="QMG78522.1"
                     /translation="MNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRTS
                     GNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     gene            complement(156..1172)
                     /locus_tag="HVY50_22210"
     CDS             complement(156..1172)
                     /locus_tag="HVY50_22210"
                     /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="QMG78520.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            1797..2300
                     /locus_tag="HVY50_22215"
     CDS             1797..2300
                     /locus_tag="HVY50_22215"
                     /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="QMG78521.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     Typing          complement(160..1172)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.041"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cagaaaaacg cagctttttc tattttgaaa aaatacaatt accatctgat ggattagctg
       61 gcctcagcgt tatacagggc ggcagaacct gatctctgga atgccgcaaa tgacgtcact
      121 ttgcggcgtt agccctatcc tgcatcgcat caaaactaac gctccatacc acccatgcca
      181 cgcgatcgcg tctgtcgctg tttttcacgt tcaatacgct gctgtttttc cttttcctgg
      241 tttttctgct taaaccgctg agccatcatc aggatttcgg tcatctgctc tctggaaagc
      301 cccttaaaag gctctgtaac gctctgtagg cgtttctgct gcgcatccat agtcttctgt
      361 agctcacgcg ctctttttgc gttctgggcg ctctgagagg ccatagcgat ggttcctgca
      421 aagccatcgt tcactgcgtg gcttagacgt ttggctatgg ctgcctgatc ttccacgtct
      481 ttggtgaaaa tgcccttccg caatacacgc ggctccagcg cctccggcga gatcgatacc
      541 tggctacggg tgccacggtt tatcgattcg tagtagtgct gaactgtctg atgcgtggcg
      601 cggcttccct cgatgccgcg ctcaagaccc agttttttta ctgattcagc gtaggtgctc
      661 tgatcttcac gcatctttga ccgcccgcca ataaactctt tcgcggacag ccgtccatcc
      721 tgcgtcaatg gcaccacgaa cgcagacagg tgcggggtgg cctcgtcccg gtgaaccacc
      781 gccgccacaa cacgatcctt cccgtatttc ttctccagcc attgctcaga gcgggcgaaa
      841 aactccgcct gctgccgcgg tgtggcctcg ttccaccact cagggcttgc cgtcataacg
      901 tattcaacag ccagtaccgc atctttacgg cgtttttccg gcaacagctc ccgcagcttt
      961 cccatcgcct catctgccga ctgagacaca gagcagtagt tttctggtgt ccgttcagcg
     1021 tcagcattcg gcgtctcacg ctccctgtag cagtgctgca aagcgctggc cacactgccc
     1081 attcccgtca gctttttgca gcgcattatc gcgtaattcg ccatgcttac cccctcgttc
     1141 tggcgtacat ccagccagtc gggggatcgc attgcgatgc ctccggcggg ccactatcag
     1201 gatgatagtg tactcactag actttgctac gcaaaatcgt tcgggcagca agctgccaga
     1261 aggtcaaaat caacggcagt ctggcaggtg gaaggcgtcg ctccgcgcca ccccccacca
     1321 ctgccaagcc tgttttatcc ggtgagtcgt caagggtaaa tggcactcgc ttcgctcgcc
     1381 cctgacgaaa tcaggcaatg aatatcgttt ttgaaagagc aggaaccgct cgccgcaaga
     1441 acggattagg gagcggcatc gccgcgagtc tgtccgttcg aggaagcgga atttccactc
     1501 cccggacata gaaatccgta cgctccagac tcaaaaaagc tcgtttttcg atgtttaaaa
     1561 atggcgtttt tcagccttta ttttccctct taatatatag atatagatat gggaacccgc
     1621 ttgtaccaag ggctagagcg aagaatcgta ctcacctcaa ggactaatcg tactcacctc
     1681 aagtactaat cgtactcacc tcaaggacta atcgtactca cctcaagtac taatcgtact
     1741 tgatgcaaag gacttgactg tatgtctctt tagtacttaa atgcgagtac taaatcatgg
     1801 cgaaacgtgg ggctggagtg aatacgaaaa agatttctag gcttgaacgg catacataca
     1861 tggatgaaaa cggtgaggta aaacaagact ctaagatcga gaccttttcc atcccagccg
     1921 aacctcccta cgtcaagcta tacattgcag acattgcgat gattcatggt ttatcaaaat
     1981 ctcaaaatga tgtgctttta caattggcaa tgctgattgg atgggatggg tttgtgtctg
     2041 tatcaaaaac tagatttgaa aaaaccatac agcccagggt tcatattgaa tatcagacct
     2101 ttaaaaacat aattgcggct cttgtagata aacaaatatt cttccgggca gggcgtgggg
     2161 aacttgaagc taaccccttt ctttttgcac ggggagactg gccatcaatt tacgaaagaa
     2221 gaaagaaaat tgagttaaag atcagttatg acaccaatgg aagaacggtg cagacgaagg
     2281 taatggatga tgaatgctga agataaactt tttaaaaatg tagacaggct aatgctgcat
     2341 gattcactaa aaaagaatga ggttctgact gtttgggagc gtactttttt aagcagtgtt
     2401 tacagcatat atcgtagaac tagcggtaat aaatactcaa ctaagggttt gtcaccaaag
//
