LOCUS       CP056407                2524 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00562 plasmid pRHBSTW-00562_4,
            complete sequence.
ACCESSION   CP056407
VERSION     CP056407.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148652
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2524)
  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 2524)
  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                     :: WTP1 T2-00562
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 93.1724665296571x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 20:45:01
            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)                     :: 4,500
            CDSs (total)                      :: 4,379
            Genes (coding)                    :: 4,222
            CDSs (with protein)               :: 4,222
            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)              :: 157
            CDSs (without protein)            :: 157
            Pseudo Genes (ambiguous residues) :: 0 of 157
            Pseudo Genes (frameshifted)       :: 72 of 157
            Pseudo Genes (incomplete)         :: 75 of 157
            Pseudo Genes (internal stop)      :: 33 of 157
            Pseudo Genes (multiple problems)  :: 22 of 157
            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..2524
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00562"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00562_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            73..357
                     /locus_tag="HV235_22485"
     CDS             73..357
                     /locus_tag="HV235_22485"
                     /inference="COORDINATES: protein motif:HMM:NF021378.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="SHOCT domain-containing protein"
                     /protein_id="QLV66388.1"
                     /translation="MGGDYSLLVFVFILLYVYHLAFHKLWLRTIDENSSIIIENGIFNF
                     NRKNASVGFSRKDVNNIDTLLKLNEARKEGIISEDEFNKLKKRLNILND"
                     /name="SHOCT domain-containing protein"
     gene            1297..1446
                     /locus_tag="HV235_22490"
     CDS             1297..1446
                     /locus_tag="HV235_22490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLV66389.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          1089..1262
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="100.0"
                     /evalue="2.58e-81"
     Typing          complement(619..1165)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.47"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 atatccgttt acatgcttct tacagccgct ttggtactgt ttcttttcgt gtataaagct
       61 ggtatgttta gaatgggcgg tgattattcc cttctcgttt ttgtttttat tttgctttat
      121 gtttaccatc tcgcttttca taaattatgg ttgcgaacga tagatgaaaa ctcatcaata
      181 ataattgaaa acgggatttt taattttaat cgtaaaaatg catctgtagg atttagtcgg
      241 aaagatgtaa ataacattga tactcttctt aaattaaacg aggctagaaa agaaggtatt
      301 ataagtgaag atgagtttaa taaattaaaa aaaagactaa atattcttaa cgactgattt
      361 tttgctaact aaaggtaaag caagctcatg aatctttgat aagattgaat atcttcttgt
      421 cattgatttt ttatcgtcgt aatcttcttc cctgcaaacg aaaaaaccac ccggcaaggt
      481 ggtttttcga aggttcgcaa gagttgacgc tcttttgaac cgcggtaact ggcttggagg
      541 agcacagtca ccaaaacttg tcctttcagt ttagccttaa ccggcgcatg acttcaagac
      601 taactcctct aaatcaatta ccagtggctg ctgccagtgg tgcttttgca tgtctttccg
      661 ggttggactc aagacgatag ttaccggata aggcgcagcg gtcggactga acggggggtt
      721 cgtgcataca gtccagcttg gagcgaactg tctacccgga actgagtgtc aggcgtggaa
      781 tgagacaaac gcggccataa cagcggaatg acaccggtaa accgaaaggc aggaacagga
      841 gagcgcacga gggagccacc agggggaaac gcctggtatc tttaagtcct gtcgggtttc
      901 gccaccactg atttgagcgt cagatttcgt gatgcttgtc aggggggcgg agcctatgga
      961 aaaacggctt tgccgcggcc ttatcgtttc cctgttaaac ttcttcctgg catcctccag
     1021 gaaatttccg cccccttcgt aagcccgcac cgctcgccgc agtcgaacga ccgagcgtag
     1081 cgagtcagtg agcgaggaag cggaatatat cctgtatcac atattctgct gacgcaccgg
     1141 tgcagccttt tttctcctgc cacatgaagc acttcactga catcctcatc agtgccaaca
     1201 tagtaagcca gtatacactc cgctagcgct acgtgactgg ttcagggctg cgccccgaaa
     1261 cccgctaaca acctctctgc tactggatat caccccatgc catctgaata tgatgaacaa
     1321 cggggttcga ctgatacgca gcttcccggc gaatatgacc tttttgattt aatggcgaag
     1381 gttactgaag agatcctgca tgcccctgtg gattctgggc cgcctgtcgg ccgggaagcg
     1441 ttatagcttt ttcgcttgcc cgcgtacgtg gtaatacgcc ggtattacct tttatttctt
     1501 tattttcatg taattacagt gggtttttaa tacctgggta ttactcgtga aaacgaaaca
     1561 ttcctttttt ttcttttaat tcatgcagtt gcgatgaaaa tcgcggctgc gttaggtgta
     1621 tgaccatttt gaggttgaaa aataatcagc catggagggt gatttacgca ggttaagggg
     1681 agatcgtgac aaaaaaagcg ttcctcactg tatcgttcat gcctgcatga acgggttatt
     1741 cttcctgact acagaattac atcgctcctt cagttcatac atcactttta caacactttt
     1801 acaacactcc ttcggcctgt acatcacttt tacaacactt ttgcatcact tttacatcat
     1861 ttatacatca cttttacatc attccttcag ctcatacgtc actttcatcc tctgtgccat
     1921 ttgtacatca cccccttcct gaacgtgctg acagcgggtt ttccggctgc gccggcaacg
     1981 cttcacggcc acgcaataaa ttgcgtcccc gttcaccgtt ttcggatggg aagaacgccg
     2041 gaaacaggac ttcccctggc tgaatggtgt gaatttccgc gctatgcact tgcgcgcata
     2101 ctcatgcatg ccgtaaaaac agagcctgct cgtttctggc gggttttcgg gtggtttgtt
     2161 gcctgtttta ccggtttccc gtcagaaacg ccctcagagc ctctcaggcg gtgcacgcaa
     2221 ggggtgttat ggtaaattcc ccatattcag ttactgcttt tctatttttt gaaataatat
     2281 taatatcagg cgattgattt taaattaatt aactatgatt gaatggtggt gatttatgcg
     2341 cgaacggtat ttaaataaaa tatctaattt tgatacggca agaatagtgt tgtttatagc
     2401 cattcaaatt atctcttgta tttttatgtt ctggggggct attcctgcct tgattgtttt
     2461 tttctcatat ttagccatga ggaaggaatg taatttaaag ccgatagaga agtctaagga
     2521 ttac
//
