LOCUS       CP057629                4593 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB20-C17 plasmid pRHB20-C17_4, complete
            sequence.
ACCESSION   CP057629
VERSION     CP057629.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148182
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  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 4593)
  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                     :: RH10 T2-C17
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 123.200012659843x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:09:12
            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)                     :: 4,897
            CDSs (total)                      :: 4,776
            Genes (coding)                    :: 4,639
            CDSs (with protein)               :: 4,639
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 46 of 137
            Pseudo Genes (incomplete)         :: 75 of 137
            Pseudo Genes (internal stop)      :: 35 of 137
            Pseudo Genes (multiple problems)  :: 18 of 137
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB20-C17"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB20-C17_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3996..4593,1..242))
                     /locus_tag="HVX65_24460"
     CDS             complement(join(3996..4593,1..242))
                     /locus_tag="HVX65_24460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMK76283.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(1253..1444)
                     /locus_tag="HVX65_24465"
     CDS             complement(1253..1444)
                     /locus_tag="HVX65_24465"
                     /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="QMK76284.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1507..1830
                     /locus_tag="HVX65_24470"
     CDS             1507..1830
                     /locus_tag="HVX65_24470"
                     /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="QMK76287.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1820..2533
                     /locus_tag="HVX65_24475"
                     /pseudo=""
     CDS             1820..2533
                     /locus_tag="HVX65_24475"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /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"
     gene            2508..3068
                     /locus_tag="HVX65_24480"
     CDS             2508..3068
                     /locus_tag="HVX65_24480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="QMK76285.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            3075..3308
                     /gene="mbeD"
                     /locus_tag="HVX65_24485"
     CDS             3075..3308
                     /gene="mbeD"
                     /locus_tag="HVX65_24485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="QMK76286.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="mbeD"
     Typing          1081..1165
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(512..1070)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1821..3406
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgtttttta ttaactcaga cttaaatggt tccgctatgg agtagtacag tgataaaata
       61 actaaaaata aaaggtattg tcttaccttt cccgatgagt atatgtaaag gcgatattta
      121 tttattgata gttttatttt gtatggaatg atctcatttc tgtcatatcc tcttcgtggt
      181 ggagcaaaac aaaagaaaca tgcagctatt aataaaacaa aaaagatgaa cagtgtaagc
      241 aagttcggct cctgtgtatg ctcactatgc atgattgtct tgagatctaa cgatcctgaa
      301 ggtagtcttg tccgtaaacg aaaaaaccgc ccagcaaggc ggcttttcga aggttctcag
      361 agcagcaact ctttgaacca aggtaactgg cttggaggag cacagccacc aaatctgtcc
      421 tttcagttta gccttaaccg gcgcataact tcaagactaa ctcctctaaa cggttaccaa
      481 tggctgctgc cagtggcgtt tttacgtgtc tttccgggtt ggactcaaga cgatagttac
      541 cggataaggc gcagcggtcg ggctgaacgg ggggttcgtg cacacagccc agcttggagc
      601 gaacgaccta caccgggccg agataccaac agcgtgagct atgagaaagc gccacgcttc
      661 ccgaagggag aaaggcggac aggtatccgg taagcggcag ggtcggaaca ggagagcgca
      721 cgagggagct tccaggggga aacgcctggt atctttatag tcctgtcggg tttcgccacc
      781 tctgacttga gcatctgttt ttgtgatgct cgtcaggggg gcggagccta tggaaaaacg
      841 ccagcggcgc ggccttcttc ctgttcctgg ccttttgctc acatgtttct tttggcgtta
      901 tcccctgatt ctgtggataa ccgcatcacc gtctttgagt gagctgatac cgctcgccgc
      961 agccgaacga ccgagcgtag cgagtcagtg agcgaggaag cggaagagcg cctgatgcgg
     1021 cattttctcc ttacgcatct gtgcggtatt tcacaccgca tatggtgcac ttttcttata
     1081 atccgcactg atgccacata gttaagccag tatacactcc gctatcgcta cgtgactggg
     1141 tcagggctgc gccccgacac ccgctaaaac ccgctgacgc gccctgacgg gcttgtctgc
     1201 tcccggcatc cgctcacagg caagctgtga acgtctccgg gagctgcatg tttcagttgc
     1261 tttcaccgtc atcgccgaag cgtgcgaggc aactacggta gagttcgtcg gcgtggtcgt
     1321 gaagtgattc gcagatgtct gcctgttcgt ccgcgtccag ctcgttgagt ttttccagca
     1381 gggtcagcgt ctggcttctg ataaagcggg ccatgttaag ggctgttttt tcctgtttgg
     1441 tcatggtctt aaggctcctt aataggggat tttttagggg gaatgatacc gatgaaacgc
     1501 gagaagatgc tcacgatacg ggttagcgat gaggagcacg cccggttact ggaacgctgc
     1561 gagggtaaac gactggcaga atggatgcgg cgggtctgtc tgggggagcc ggttgcgcgc
     1621 acaggaaaac tgccgacact atcgccgcca ttgctgcggc atctggctgc catcgggaac
     1681 aatctgaacc agacagcccg gaaggtgaac agcggccact ggtcttcgat tgaccgggtt
     1741 catgtggtgg ccgctctgat ggccatcgag ggtgaattgc gccagttgcg gcaggctgtc
     1801 agggaacagg ggggacggga tgatagttaa atttcatgcc agggggaaag gcggtggaag
     1861 tggcccggtc gattacctgc tggggcggga gcgtaaccgc gaaggcgcaa cggtgctccg
     1921 gggtaacccg gaagaaatcc gggaactcat tgatgccacg ccattttcga agaaatacac
     1981 gtcaggcgtt ctgtcgttcg cggagaagga gttaccgccg ggtgaacgcg aaagagtgat
     2041 gacgagcttt gagcgtgttc ttatgcccgg tctcgaaaaa gaccagtaca gcattctctg
     2101 ggtggaacac caggataagg ggcggctcga actgaatttt gtcattccga acatggaact
     2161 acagagcggt aagcgcctcc agccgtacta cgaccgtgcg gacaggccga ggataaatgc
     2221 ctggcagacg ctggttaatc atcattacgg gctgcgtgac ccgaacgcac cggagaacag
     2281 acggacgctt gtcacaccga ataatctgcc aaaagcgaaa caggaggccg cagaagcgat
     2341 tacacggggt cttgaggcgc tttaccgtgc cggagcaata aaaacgcgtc aggatgtcac
     2401 tgaggcgctc acagcggcag gttttgaggt ggtgaggaca accagaagca gtatcagtat
     2461 tgccgacccg gagggggggc ggaatctcag gctaaagggg gcgctgtatg agcaatcttt
     2521 tacaaatggg aacggacttc gagaagaaac tgaaagagcg agccgcttct accgagaaca
     2581 tgctgaacag cgagttcagg aagctagaag agtctgtaga caaggcactg agcttaaaca
     2641 ggcagaaaat cagagacgct atcagcgaac atacaacatc cgtgaaacag caactggata
     2701 cgctgagcac caccgtgagc acgcagctca gcaccacaga ggccgaactg tcccggcagc
     2761 agaaaaacct gctctggcag gtgatcaaag ggcgggtact gtttccggcg ctgaccgcgc
     2821 tcagcgtcac gggcggcatt ttcctggggt gctgggggct gattcagtgg caggaaagca
     2881 ggattgcgaa aaatatcttg accatcagag agcaggaaaa cacgctggcg aaactcgagg
     2941 caaaaacctg gggggtgacg ttcgtcaatg gcgagaacgg gaaatttctg gtgctgccgg
     3001 acggggtgaa aggggaaaac acctggacgg tgggcgacaa gaacgccgtg aggctggtca
     3061 gggagtaaac gagtatgacg gaactggaag ggcatttgct gaacgcctta gagcatttgc
     3121 aacaggacta tatgcggcgg ctgaacgagt gggagagcgc cttcgcagaa ttgcagaaga
     3181 tgcacgcggt tacgcaacag aacaacgcga tactgaacga gcgtgtcgtg aacttgagtc
     3241 agcaggtgca gctattagcc ggacaagtcg accgcttgag tcggttattt atcacgaaca
     3301 acagataagg gatgagcagg agcgtcaggc gcaggagctt gcccggcgct ggcatgaaga
     3361 gcaggaaccc gaagcgcgga tctggcgtgg cccgtcaatg gggatgtgac cggggtaccc
     3421 catgaaatcg agccagtttg tggcacgccc tacccggatg gcgccaatgt taatgtacgt
     3481 acattagcat taacaatatc caaacctccc cattttgccc cgttcgacgg ctggaacgtg
     3541 cgaaactgat cgtcattcag tttcgcgcat aactatgcat gaggttaaaa tttaccaggc
     3601 gcgatcgcgg cagtttttcg ggtggtttgt tgctgttttt acctgtctgc tgccgtgatc
     3661 gcgctgaacg cgtttaagcg gtacgcgcaa tgcgacgtta tggtaaatac ggagtatttt
     3721 aattgcgggc ctttgttgta tatctctgtc gtttgtcccc ggggggaagc attactgcta
     3781 acaagtcccg tgagaaaact gcgcaatcgt attgcgcacc atgaacctat tctcaaccgc
     3841 aatctggagg atgattttgc tacgataaag agaattatcg cgtatcggtg tcagcattca
     3901 ttggagtgga tgctgaaaaa ccaggtgtta ctccctctac ttacacttaa acctctctaa
     3961 aaatataagt aagtactatc gagggctatc atgaactatg gtgccctctg agcatagcta
     4021 cccattactt cttctatgtc attgaataat tcatttctta actctaagta ttctagtaac
     4081 tccatttcta atgactctgt cgtgaactta aatctagaag gatctttgat tgagtttact
     4141 agtcttgata acgctctata tgttttgagt gaaggttgca ttatagatgg aaagtatttg
     4201 aaaacctctt catctctgtt gaaattaact aaaaacttgt agtcatcatt tataaatctc
     4261 aagcatacag cgtcaagctt atcgcctttt cttattatta tttctttata ggaaagatat
     4321 ttttcagaag ataagtccca catcaagcga aaatctctct ttgcgaacga gttcgcgtca
     4381 tcattgaaaa gagatgatgt gatggctttg gatagacctt ctgtgtttat ctctttgttg
     4441 gatgggtagt aaattttatt aattgctttc attctctcaa atgatgaata taggtcatta
     4501 tgccaccttg ttgaaatcac tcctttagtt atattctcct tgctaaaatt aagccctgta
     4561 tcaaaaataa atgcagccat cagtgaatat gat
//
