LOCUS       CP056946                1306 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB42-C04 plasmid pRHB42-C04_7, complete
            sequence.
ACCESSION   CP056946
VERSION     CP056946.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148434
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1306)
  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 1306)
  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                     :: RH12 T3-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 151.53365995679x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:47:40
            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)                     :: 4,795
            CDSs (total)                      :: 4,673
            Genes (coding)                    :: 4,575
            CDSs (with protein)               :: 4,575
            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)              :: 98
            CDSs (without protein)            :: 98
            Pseudo Genes (ambiguous residues) :: 0 of 98
            Pseudo Genes (frameshifted)       :: 48 of 98
            Pseudo Genes (incomplete)         :: 46 of 98
            Pseudo Genes (internal stop)      :: 25 of 98
            Pseudo Genes (multiple problems)  :: 18 of 98
            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..1306
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB42-C04"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB42-C04_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            481..1017
                     /locus_tag="HV017_23975"
     CDS             481..1017
                     /locus_tag="HV017_23975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221105.1"
                     /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="QMA86060.1"
                     /translation="MQTQNVITEKEREIRSRDLTENAKKLAHERREAEKNSNFTQVSPL
                     GWKRLMELAKGNQGAFGLYSFFAQHIDGSCGAVVADQSFLAAQFNVSTRTIIRWINYLE
                     ENRAVVRIPVAGKVCAYALNPNEVWKGYGNTKEYAAFITKTLVNKDGDIQRRIMAMFHG
                     NDARQGMEGDTPEAE"
                     /name="helix-turn-helix domain-containing protein"
ORIGIN
        1 aattagagag atgcgcactt atatgtttct tcgccgttgg ctcagaaaca tgtgcggcct
       61 gcggcgctaa aacccgtctg gcaggtggtt gcgctcactg cgtgaacaca accaccttcc
      121 ccaatttttt ttgatcggtg cgttggcaac aaaaaaatcg gaacccctga aggggccccc
      181 acgatttttc ggttgccaat ggttaaattt tcgccgtttg cccgactgaa aggagggtgc
      241 taccaggaga tctcgcagcg cgctgtgaga tctctttaga taagaatagc aaaaattaat
      301 aattcattga tttaaaagac atttaacatt tctgatatga caccctagga tgtcacaacg
      361 ttatgacacc ctaggatgtc acatcatttc gtaatatgtg acataaatga catatactac
      421 gacataaaat gtcgtatagt atgacttgtc ttgtcacatt gaaatgacat ggagattgag
      481 atgcaaactc aaaatgtaat caccgaaaaa gagcgagaaa ttcgatctag ggatctaacc
      541 gaaaatgcca aaaaactggc tcatgagagg cgagaggcag aaaagaactc aaatttcaca
      601 caagtgtccc cattaggctg gaagcgttta atggaattag ccaaaggaaa tcagggagct
      661 tttggcttgt attctttttt tgctcagcat atcgatggat cttgtggcgc agtagtggcg
      721 gatcagtcat ttttggcggc gcagttcaat gtatcgacaa gaacaataat tagatggatc
      781 aactatttag aggaaaacag ggctgttgtg aggattcctg tcgccggtaa ggtttgtgca
      841 tacgcattga atccaaatga agtttggaag gggtacggga ataccaagga atatgcggcg
      901 tttataacaa aaaccctagt caacaaagac ggcgacattc agcgccgaat catggccatg
      961 ttccacggaa atgatgcccg tcagggcatg gaaggcgaca cgccagaagc cgaatagatt
     1021 cccgttcgcc aaatcgccga agcccgcccg caagggcggt acaggttcca cagggagctg
     1081 cttcaccccc tccgccctgc aaagccctaa aacgctctca gaacgcacgt aagccatttt
     1141 tccgcccaaa gcccacgtga gcccgtagaa cgtcaaaaaa cgcgtcagag cgcgttttag
     1201 ggcgttttac gggtgatttc gtgggtcttg ccggactggt tcaccaggac ggctagaggc
     1261 ggagtactcc gattatccag actggtttca tctctcaaat tcgtga
//
