LOCUS       CP057940                3469 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB09-C18 plasmid pRHB09-C18_5, complete
            sequence.
ACCESSION   CP057940
VERSION     CP057940.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148049
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3469)
  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 3469)
  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                     :: RH08 T1-C18
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 87.3398554340798x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:58:18
            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)                     :: 4,761
            CDSs (total)                      :: 4,639
            Genes (coding)                    :: 4,479
            CDSs (with protein)               :: 4,479
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 63 of 160
            Pseudo Genes (incomplete)         :: 85 of 160
            Pseudo Genes (internal stop)      :: 33 of 160
            Pseudo Genes (multiple problems)  :: 20 of 160
            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..3469
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB09-C18"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB09-C18_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(273..704)
                     /locus_tag="HVW32_23785"
     CDS             complement(273..704)
                     /locus_tag="HVW32_23785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000135004.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="QMO85827.1"
                     /translation="MARVSISEAARLASVSRPTIYKLLKSGELSYTSVVKHGKSVKAID
                     TTELIRVFGSLSFDSERDNGVVKFDEHSTGVNSNFLQDLQHQVALLQAENAGLKDAVNA
                     RDEHINSLRQAMQLLEHKQDTADPQHVPAKSWWQFWKSR"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(704..895)
                     /locus_tag="HVW32_23790"
     CDS             complement(704..895)
                     /locus_tag="HVW32_23790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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="QMO85828.1"
                     /translation="MTKQQKTALNMAKFIQGQTLLLLEKLNELDLDVEADLCEKLHEDA
                     EQLCRTLTIRLDGHQGDL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1616..2146)
                     /locus_tag="HVW32_23795"
     CDS             complement(1616..2146)
                     /locus_tag="HVW32_23795"
                     /inference="COORDINATES: protein motif:HMM:NF012792.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GNAT family N-acetyltransferase"
                     /protein_id="QMO85829.1"
                     /translation="MRLIPGFQPFDLCAEYNMANFSCGVTHLDEFLKTGLHKMQRRSLL
                     KGYVLLSDDETPEIMGYYTLSGASFERGHLSNRLRKKIPYSNMPAVLLGRLAIDQRIQR
                     KGFGELLIVDAIHKVRATAGQIGIYAMFVEAHPGASSFYTRMGFIPSSMADDNKTFFYP
                     ANQFDDLISGYKC"
                     /name="GNAT family N-acetyltransferase"
     gene            complement(2137..2421)
                     /locus_tag="HVW32_23800"
     CDS             complement(2137..2421)
                     /locus_tag="HVW32_23800"
                     /inference="COORDINATES: protein motif:HMM:NF020265.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1778 domain-containing protein"
                     /protein_id="QMO85830.1"
                     /translation="MNAVRKERFEFRLPEAAKRRIEEAAVISKVSVSQFVMESATFRAE
                     TVINEHRRLIVEEDVWEQVMAALERPPAPTQSMCKAFERYNSEESWICD"
                     /name="DUF1778 domain-containing protein"
     gene            complement(3014..3235)
                     /locus_tag="HVW32_23805"
     CDS             complement(3014..3235)
                     /locus_tag="HVW32_23805"
                     /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="QMO85831.1"
                     /translation="MKKWLATLIDDLKFLGAEFKREFSDLSITPVTAEQHLQKIAEMRR
                     STVAGKLSRGVLQIRDGVLTFYGMKTKW"
                     /name="hypothetical protein"
     Typing          1073..1427
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.855"
                     /coverage="83.0"
                     /evalue="2.31e-150"
ORIGIN
        1 gaacgcctgt aactctgggc tttcagtcca atttcataaa aaaatgcatg acatttgcac
       61 attaggtgtc atgccccccc aaagccagtc tcagcacggc tttgggcttt gcattgcata
      121 atgcgtgggg tgtgacacga ttttatggcc ttgctcagcc atcaggagtc aaacatgcag
      181 gaaaatcagc aggacaaaag agtacaaaaa tccatatccg gcagaaactg agtggcagga
      241 cgaacgctat ggccggaatg cgtggtaatg actcagcggg atttccagaa ctgccaccag
      301 gactttgcag ggacatgctg cggatcagca gtgtcctgtt tatgctccag cagctgcatg
      361 gcctggcgaa gtgagttgat atgttcatcc cgggcattca ctgcatcttt cagcccggcg
      421 ttttctgcct gcaaaagtgc cacctgatgc tgtaaatcct gtaaaaaatt actgttaaca
      481 cctgtagagt gttcgtcaaa ttttacaacg ccattgtcac gttcactgtc aaaactaaga
      541 gaaccgaaaa cacgaataag ctctgtagta tcaatggctt ttacagattt tccatgcttt
      601 acaacagagg tgtaacttaa ctcaccagat ttgagtaact tgtaaatagt cggacgactg
      661 acactggcaa ggcgtgccgc ttcgctaata gatacccggg ccattataaa tccccctgat
      721 gaccatccag acgaatagtc agagtacgac agagttgttc cgcatcctca tggagctttt
      781 cacaaagatc cgcctcaaca tcgagatcaa gttcattaag cttttccaac aaaagcaggg
      841 tctgcccctg gataaacttc gccatattaa gcgcagtttt ctgttgtttc gtcatcacag
      901 cgtcagtgct ccaagtgata tccggttatt ttccgcttcc tcgaccgttc gctcgctacg
      961 ctcggtcact tgtctgcggc gagcggacgg atctttcgaa gagacaaata acgtaaacgg
     1021 taagcgtaac gaaaaaccag aaagagaacg acaaggccac gccccacggg gcgtttttcc
     1081 ataggcttcg cccccctgat aagcatcaca gaatctgacg ctcaaatcag tggtggcgaa
     1141 acccgacagg actataaaga taccaggcgt ttccccctgg cggctccctc gtgcgctctc
     1201 ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgg tttctcattc
     1261 cacgcctgac actcagttcc gggtaggcag ttcgctccaa gctggactgt atgcacgaac
     1321 cccccgttca gtccgactgc tacgtcttat tcggtaacta tcacttgagt ccaacccgaa
     1381 aagacacgac aaagcgccac tggcagcagc cactggtaac tgatttagag gagttagtct
     1441 tgaagttatg cgccggttaa ggctaaactg aaaggactga tttggtgact agctcctctt
     1501 tagccagtta ccttggttta gtgaacttgc cggttcacta accttaaaaa agccaccttg
     1561 ccgggtggtt tttttttact ttcacatatg tctcaaagac atatgtgaaa gtactctagc
     1621 atttatagcc agagataaga tcatcaaact gattagcagg gtagaaaaat gttttattat
     1681 catcagccat tgatgatgga atgaagccca ttcttgtgta aaaagacgaa gctccaggat
     1741 gcgcctcaac aaacatggca tagataccaa tctgtccagc agtagccctt accttatgga
     1801 tagcatcgac aattagtaac tcaccaaaac cttttcgttg aattcgttga tcgatagcaa
     1861 gacgacctaa cagcactgcc ggcatgttcg agtaaggaat tttcttcctc agacggttac
     1921 tcaaatgccc tcgttcgaat gatgctccgc tcagcgtgta gtaccccatg atctctggag
     1981 tttcatcatc agaaagcaga acgtagccct ttaataggct acgcctctgc attttgtgga
     2041 gaccggtttt caaaaactca tctaaatgtg tgactccaca gctaaagttc gccatgttgt
     2101 attcagcaca caaatcaaaa ggttgaaaac cagggattaa tcgcaaatcc aactctcctc
     2161 agagttataa cgctcaaacg ctttacacat actttgtgtt ggtgctggag ggcgttcaag
     2221 ggcagccatg acttgctccc aaacatcctc ttcaacgatc aagcggcgat gttcattaat
     2281 aactgtttca gctctaaaag tcgcagactc cattacaaat tgagatacgg acactttaga
     2341 aataacagca gcttcttcga tacggcgctt cgcagcttcg ggcagacgaa actcgaaccg
     2401 ctcctttctt actgcgttca taacaactcc tgagctaatg ctcacagtgg tttataccac
     2461 ataacgatat gcacggtacg ggaatttacc gtacaggtaa tttgaggtga ttttgatctg
     2521 agaaactatg ccagtcaagt taatggaggg ggggtgtggt gatttttgag aaaaaaaccc
     2581 aaaccaaaga aaaataacct taaaaaacaa aaacttacat atggcaatga cacttagaga
     2641 gagggaagtc tttaaagact tccctctctc taagtgtcat tgccatttga ttttaccatt
     2701 tttttgcata taaatctata gctattttga gcaaacacat gaaccaattc acactctcac
     2761 tgcaaaccag ccattgaaca agatttacca taacgtctca ttacgcgcac cgctgaaacg
     2821 cactgagtgc gatttcggcg cgaagacgat gaaaaccaca gcttatccgg caaaaatgcg
     2881 ccagaatcga tctgagcgcg tttacggcct gtgaatgatt atgcagcgca gtgaatgagc
     2941 tcggcctggc acaaaaaagc tggtgaaacc gcgatttttc ccggttttcc tgcccggatt
     3001 tccgggcgga agcctaccat ttcgttttca tgccataaaa ggtcagtacc ccgtccctga
     3061 tttgcaaaac accccgggat aacttcccgg ctacggtgga acggcgcatt tcagctattt
     3121 tctgcagatg ttgctcggcc gtcacagggg tgatactcag atccgaaaac tctctcttaa
     3181 actcagcccc cagaaacttc aggtcatcga taagggtcgc aagccatttt ttcaccgttc
     3241 tgcctcacat catttaagtt attcagataa cagtctggca cagactggag aaagaaagcg
     3301 gtgaacgggc acgcaattta ttgcggggtc gtgaggcgct ggcaggatcg tctagcaaat
     3361 ttagcaacgg gaaaagtcat gcacgtcgaa caggtaaaaa taataattaa aatcaacaca
     3421 ttatatgaat aaaatgagag aaacatcatg caggggggca tgacgccgc
//
