LOCUS       CP058035                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB03-C12 plasmid pRHB03-C12_5, complete
            sequence.
ACCESSION   CP058035
VERSION     CP058035.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147979
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-C12
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 105.800720179989x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:53:24
            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)                     :: 4,561
            CDSs (total)                      :: 4,439
            Genes (coding)                    :: 4,329
            CDSs (with protein)               :: 4,329
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 46 of 110
            Pseudo Genes (incomplete)         :: 48 of 110
            Pseudo Genes (internal stop)      :: 31 of 110
            Pseudo Genes (multiple problems)  :: 13 of 110
            CRISPR Arrays                     :: 1
            ##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-C12"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB03-C12_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(2189..2460,1..697)
                     /locus_tag="HVV62_22800"
     CDS             join(2189..2460,1..697)
                     /locus_tag="HVV62_22800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="QMQ52511.1"
                     /translation="MANYAIMRCKKLTGMGSVASALQHCYRERETPNANAERTPENYCS
                     VSKSTDQAMGRVRELLPEKRRKDAVLAVEYVMTASPEWWKEATPRQQAEFFARSEQWLE
                     KKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRSKMREDQSTYAESVK
                     KLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPRVLRKGIFTKDVEDQAA
                     IAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKRLQSVTEPFKGLSREQM
                     TEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            complement(1013..1516)
                     /locus_tag="HVV62_22805"
     CDS             complement(1013..1516)
                     /locus_tag="HVV62_22805"
                     /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="QMQ52512.1"
                     /translation="MLIHGARVNTKKISKLERHTYMDESGEIKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFLRAGRGELEANPFLFARGDWPSIYERRKKIELRISYDSNGRTVQTTVT
                     DDER"
                     /name="hypothetical protein"
     Typing          3..694
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.537"
                     /coverage="96.0"
                     /evalue="8.08e-134"
     Typing          2181..2458
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.398"
                     /coverage="96.0"
                     /evalue="1.23e-50"
ORIGIN
        1 gcaggcggag tttttcgccc gctctgagca atggctggag aagaaatacg ggaaggatcg
       61 tgttgtggcg gcggtggttc accgggacga ggccaccccg cacctgtctg cgttcgtggt
      121 gccattgacg caggatggac ggctgtccgc gaaagagttt attggcgggc ggtcaaagat
      181 gcgtgaagat cagagcacct acgctgaatc agtaaaaaaa ctgggtcttg agcgcggcat
      241 cgagggaagc cgcgccacgc atcagacagt tcagcactac tacgaatcga taaaccgtgg
      301 cacccgtagc caggtatcga tctcgccgga ggcgctggag ccgcgtgtat tgcggaaggg
      361 cattttcacc aaagacgtgg aagatcaggc agccatagcc aaacgtctaa gccacgcagt
      421 gaacgatggc tttgcaggaa ccatcgctat ggcctctcag agcgcccaga acgcaaaaag
      481 agcgcgtgag ctacagaaga ctatggatgc gcagcagaaa cgcctacaga gcgttacaga
      541 gccttttaag gggctttcca gagagcagat gaccgaaatc ctgatgatgg ctcagcggtt
      601 taagcagcaa aaccaggaaa aggaaaaaca gcagcgtatt gaacgtgaaa aacagcgaca
      661 gacgcgatcg cgtggcatgg gtggtatgga gcgttagttt tgatgcgatg caggataggg
      721 ctaacgccgc aaagtgacgt catttgcggc attccagaga tcaggttctg ccgccctgta
      781 taacgctgag tccagctaat ccatcagatg gtaattgtat tttttcaaaa tagaaaaagc
      841 ggtgcttttt tgttttggtg acaatccctt agttgaaaat tcattaccgc ttgttctgcg
      901 atatatgctg tatgtactac ttaaaaaagt acgctcccaa acagtcaaaa cctcattctt
      961 ttttagagag tcatgcagca ttaatctatc tacttttttg aatagcttat cttcagcgtt
     1021 catcatccgt taccgttgtt tgtactgtcc ttccattgga atcataactg attcttaact
     1081 ctattttttt tcttctttcg taaattgaag gccagtctcc ccgagcaaaa agaaacggat
     1141 tggcttcaag ctctccccgc cctgcccgga gaaagatttg tttatcaaca agggcagcga
     1201 ttatgttttt aaacgtctga tattcaatat gaaccctagg ttgtatggtc ttctcaaatc
     1261 tagtttttga tacagataca aagccatccc atccaatcag cattgccaac tgcaaaagca
     1321 catcattttg agattttgac aaaccatgaa tcatcgcaat gtctgcgatg taaagcttga
     1381 cgtagggcgg ttcagccggg atagaaaaag tctcgatctt agagtcttgt ttaatctctc
     1441 cgctctcgtc catgtatgta tgccgttcaa gcttagaaat cttttttgta ttcactctag
     1501 ccccatgtat cagcatgttt ttagtactca catttaagta ctaaagatgc cggtagtcaa
     1561 gtaccttacc taaagtacga ttagtacttg aggtaagtac gattagtact tgaggtgagt
     1621 acgattagta cttgaggtaa gtacgattag tacttgaggt gagtacgatt cttctctcta
     1681 gcccttggtg tgcgcgggtt cccgtatcta tatctatata ttaaggggga aaataaaggc
     1741 tgaaaaacgc catttttaaa catcgaaaaa cgagcttttt tgagtctgga gcgtacggat
     1801 ttctatgtcc ggggagtgga aattccgctt cctcgaacgg acagactcgc ggcgatgccg
     1861 ctccctaatc cgttcttgcg gcgagcggtt cctgctcttt caaaaacgat attcattgcc
     1921 tgatttcgtc aggggcgagc gaagcgagtg ccatttaccc ttgacgactc accggataaa
     1981 acaggcttgg cagtggtggg gggtggcgcg gagcgacgcc ttccacctgc cagactgccg
     2041 ttgattttga ccttctggca gcttgctgcc cgaacgattt tgcgaagcaa agtctagtga
     2101 gtacactatc atcttgatag tggcccgccg gaggtatcgc aatgcgctcc cccgcctggc
     2161 tgaatgaatg ccggaatcag gggggaacat ggcgaactac gcgataatgc gctgcaaaaa
     2221 gctgacggga atgggaagcg tggccagcgc gttgcagcac tgctaccgag agcgtgagac
     2281 gccgaacgct aacgctgaac ggacaccaga aaactactgc tctgtgtcca aatcaacgga
     2341 tcaggcaatg gggcgtgtgc gggagctgct gccggaaaaa cgccgtaaag atgcggtact
     2401 ggccgttgaa tacgttatga cagcaagccc tgagtggtgg aaagaggcca caccacggca
//
