LOCUS       CP057388                3374 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB28-C05 plasmid pRHB28-C05_5, complete
            sequence.
ACCESSION   CP057388
VERSION     CP057388.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148267
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3374)
  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 3374)
  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..3374
                     /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_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            97..330
                     /gene="mbeD"
                     /locus_tag="HVY50_22185"
     CDS             97..330
                     /gene="mbeD"
                     /locus_tag="HVY50_22185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="QMG78517.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="mbeD"
     gene            complement(1648..1839)
                     /locus_tag="HVY50_22190"
     CDS             complement(1648..1839)
                     /locus_tag="HVY50_22190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QMG78518.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1903..2226
                     /locus_tag="HVY50_22195"
     CDS             1903..2226
                     /locus_tag="HVY50_22195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="QMG78519.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2216..3058
                     /locus_tag="HVY50_22200"
                     /pseudo=""
     CDS             2216..3058
                     /locus_tag="HVY50_22200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557251.1"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          1484..1567
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="95.0"
                     /evalue="4.11e-16"
     Typing          4..413
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="83.099"
                     /coverage="99.0"
                     /evalue="1.6000000000000002e-48"
     Typing          2217..3373
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.632"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gggaaatttc tggtgctgcc ggacggggtg aaaggggaaa acacctggac ggtgggcgac
       61 aagaacgccg tgaggctggt cagggagtaa acgagtatga cggaactgga agggcatttg
      121 ctgaacgcct tagagcattt gcaacaggac tatatgcggc ggctgaacga gtgggagagc
      181 gccttcgcgg aattgcagaa gatgcacgag gttacgcaac ggaacaacgc gatactgaac
      241 gagcgcgtcg tgatattgag tcagcaggtg cagagattag ccgggcaagt ggatcgcttg
      301 agtcggttat ttatcgcgaa caacagctaa gggatgaaca ggagcgtgcc cggtacagac
      361 atgaggtaca ggaacgcgcg gcgcgggttc ggagtgggcc atcaatggag atgtgaccgg
      421 ggaagtgacg aaaccttgcc attttgaccc attcgacggc tgggggcgag cgaaacaaat
      481 cgtgtgccgt atttgtgcat agctatgcaa tatcctgaaa acgcatttca cgcgtttttg
      541 gggattcagc caggggaaaa catggttttt ttgctttttg agcgtaaaga cgtgaaaaat
      601 ctcgttattt cacttgcgat ctttcgtcgg agagcgtaga acgaaaaaag cccgccatta
      661 ggcgagcttc ttcgggttca ttgaggtttt cgacctcctc aatgttcctg tggagtctgt
      721 tgttcgcagc gacagaaacc agttcattca gtttgcatga accttctgta ttcttcaaga
      781 atttttccgc tgcacagcct cccagatacc cgaaaaaaaa cctttttttg cagatgcttg
      841 cgtgtttgca aagaccgttt gcggttgggg gagctgtgac gacggcgacc gcacgcgtga
      901 gagttccgct accggcgcag agagtttcat cgacagcgga cacctgatga gttgccacaa
      961 aaaccgtatg tagcgcggct agattggttg agttagacct tggcggcagt tcccggtatg
     1021 tggtggcgtg acgggtgaga tggtgcggcg aagacgcata cgtcacgcag gcgcgggttc
     1081 ttccactgac gcgccccgtg atcgatggcc ttggctccgt ccggcatatc gagagcggca
     1141 aactacccgt cccttcactg ggaggggtga gttgttgccg ttccctccaa cctttcacca
     1201 tccggcatat cgcacgatcc catgtgcacc gcaactcctg ataactcctg tgcaaaaaaa
     1261 aaaaacggat ctgcatcaca acgagagtga tcacaccgct cgccgcagcc ccagcgaccg
     1321 aacgtagtga gcgagtgggc gaggaagcgg aagtgtcacc gaggcaagca ttgtgcactt
     1381 acgcgcctgt gcccgtgtcc gcatgtgtgc tgtttatcgg gtgcgctgtt tttacgcatc
     1441 tgtgcggctt tttactcctg acatggagta ctttccatcc actctgctcc gatgcaaaat
     1501 gagataagcc agtatacaca tcgctatcgc tctgtgaact gggtcagggc tgcgccccga
     1561 cacccgcact gacgcgccct catgggcttg tctgctcccg gcatccgctc acaggcaagc
     1621 tgtgaacgtc tccgggagct gcatgtttca gttgctttca ccgtcatcgc cgaagcgtgc
     1681 gaggcaactg cggtagagtt cgtcggcgtg gtcgtgaagt gattcgcaga tgtctgcctg
     1741 ttcgtccgcg tccagctcgt tgagtttttc cagcagggtc agcgtctggc ttctgataaa
     1801 acgggccatg ttaagggctg ttttttcctg tttggtcatg gtcttaaggc tccttgtatt
     1861 ggggatttgt tagggggaat gataccgatg aaacgcgaga agatgctcac gatacgggtt
     1921 agcgatgagg agcacgcccg gttactggaa cgctgcgagg gtaaacgact ggcagaatgg
     1981 atgcggcggg tctgtctggg ggagccggtt gcacgcacag gaaaactgcc gacactatca
     2041 ccgccattgc tgcggcatct ggctgccatc gggaacaacc tgaaccagac agcccggaag
     2101 gtgaacagcg gtcagtggtc ttcgattgac cgggttcatg tggtggccgc actgatggcc
     2161 atcgagggtg aattgcgcca gttgcggcag gctgtcaggg aacagggggt acgggatgat
     2221 agttaaattt catgccaggg ggaaaggcgg tggaagtggc ccggtcgatt acctgctggg
     2281 gcgggagcgt aaccgcgaag gcgcaacggt gctccggggt aacccggaag aagtgcggga
     2341 actcattgat tccacgccat tttcgaagaa atacacgtca ggcgttctgt cgttcgcgga
     2401 gaaggagtta ccgccgggtg aacgcgaaag agtgatgacg agctttgagc gtgttcttat
     2461 gcccggtctc gaaaaagacc agtacagcat tctctgggtg gaacaccagg ataaggggcg
     2521 gctcgaactg aattttgtca tcccgaacat ggagctacag agcggtaagc gcctccagcc
     2581 gtactacgac cgtgcggaca ggccgaggat aaatgcctgg cagacgctgg ttaatcatca
     2641 ttacgggctg cgtgacccga acgcaccgga gaacagacgg acgcttgtca cgccaaataa
     2701 tctgccaaaa gcgaaacagg aggccgcaga agcgattaca cggggtcttg aggcgcttta
     2761 ccatgccgga gcaataaaaa cgcgtcagga tgtcactgag gcgctcacag cggcaggttt
     2821 tgaggtggtg aggacaacca gaagcagtat cagtattgcc gacccggagg gtgggcggaa
     2881 tctcaggcta aagggggcgc tgtatgagca atcttttaca aatgggaaca gacttcgaga
     2941 agaaactgaa agagcgagcc gcttctaccg agaacatgct gaacagcgag ttcaggaagc
     3001 tcgaagagtc tgtagacaag gcactgagct taaacaggca gaaaatcaga gacgctatca
     3061 gcggacatac aacatccgtg aaacagcaac tggatacact gagcgccacc gtgagcacgc
     3121 agttcagcac cacagaggcc gaactgtccc ggcagcagaa aaaactgctc tggcaggtga
     3181 tcaaagggcg gatactgttt ccggcgctga ccgcgctcag cgtcacgggc ggcattttcc
     3241 tggggtgctg ggggctgatg gagtggcaag aaagcaagat tgcgaaaaat atcctgacta
     3301 tcagagagca ggaaaacacg ctggcgaaac tcgaggcaaa aacctggggg gtgacgttcg
     3361 tcaatggcga gaac
//
