LOCUS       CP056281                4074 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00863 plasmid pRHBSTW-00863_4,
            complete sequence.
ACCESSION   CP056281
VERSION     CP056281.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148722
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  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 4074)
  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                     :: WTP5 T3-00863
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 155.608840481376x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 18:55:19
            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)                     :: 4,857
            CDSs (total)                      :: 4,736
            Genes (coding)                    :: 4,441
            CDSs (with protein)               :: 4,441
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 295
            CDSs (without protein)            :: 295
            Pseudo Genes (ambiguous residues) :: 0 of 295
            Pseudo Genes (frameshifted)       :: 129 of 295
            Pseudo Genes (incomplete)         :: 168 of 295
            Pseudo Genes (internal stop)      :: 44 of 295
            Pseudo Genes (multiple problems)  :: 35 of 295
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00863"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00863_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3882..4074,1..401)
                     /locus_tag="HV305_24275"
     CDS             join(3882..4074,1..401)
                     /locus_tag="HV305_24275"
                     /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="replication protein"
                     /protein_id="QLS87509.1"
                     /translation="MSGRKFGRLPNWWARSSWLVNNVRSNEIGGGIASMKCLLALSVLI
                     DFHSRTASVSFTGMERLTGLSRPMIVKGVAKLEKDGLIKIDREMFVNSYELTVQPNDDR
                     WAKVPVDTIRKKLNTISNRGMAPFVALKLYLTIISLRYQSNNTVKVTHETLRSYTGVQP
                     NQIRFGLDVLYCSRLIHLQPKEDRESNIYEIIGL"
                     /name="replication protein"
     gene            1175..1369
                     /locus_tag="HV305_24280"
     CDS             1175..1369
                     /locus_tag="HV305_24280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QLS87507.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2374..3288
                     /locus_tag="HV305_24285"
     CDS             2374..3288
                     /locus_tag="HV305_24285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001448734.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="QLS87508.1"
                     /translation="MPNTIHYPHVIPFISQGKINAIKSTFGNNLSDRECYGIYIWSQKA
                     SSAIYPLLQQLEVTLRNSIDKEATKLIGQKWWDNVYTDTSKSKHGDFIHNINKAIRRYE
                     NEFKKKNPSMANTKIIAPHDDIIAHTDFYTWQAVLSDAFHTQSRSEASRALWPRLTYRV
                     LKGLDRSKDEGTARIDFLNELNEIRNYRNRLSHNDCIWIKIHSKNLQSAVETIREKINK
                     IEGLIKTINPQVHLSLTKWGSFYHAKRICSQKEAELHLGKGIINSTTDEMNTILDQLYA
                     LTADGKLTGVVKRNTNNIAFHKF"
                     /name="Abi family protein"
     Typing          complement(660..915)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.411"
                     /coverage="89.0"
                     /evalue="2.67e-103"
     Typing          complement(1040..1138)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(1451..1537)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.43e-38"
     Typing          1548..2107
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.204"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taagccgccc catgatagtg aaaggagtag ccaaacttga gaaagatggt cttataaaga
       61 tagatagaga gatgtttgtt aactcctatg aattaacagt acagccaaat gatgataggt
      121 gggcaaaagt accagtagat actatcagga aaaaactaaa caccatatcg aacaggggga
      181 tggccccatt tgtggcatta aaactatatt taacaattat aagccttcgt tatcagtcaa
      241 ataatactgt taaggtgaca catgaaacac tgagaagcta tacaggtgtc cagccaaacc
      301 agattaggtt cggcttagat gtactgtact gtagtcgcct gatacatctg caaccaaaag
      361 aagatagaga gtcaaacatc tatgaaataa tcggcctatg aggaaatgca tttaccataa
      421 cgtcgcatta cgcgcaccgc taaaacgcac tgaacgcgat tctgacgcag ataccgcaaa
      481 aagagatgtt ttacccagtg aaaaccgaaa aaatgcgtca ggatcgtttt cagcccactg
      541 catagctatg catgaaaatg aatgacgaac ggtttgggcg catacggtgc ccatgagaca
      601 cattttcgga cattttcagt tcgtgaatcc ctgactcatt gctacatatc tgaacagaca
      661 cccctggcag cgcccccagg ggcgtcctgt aaaaaaacac accgcgccgc tagcagcacc
      721 cctgatataa aatgatgttt tttataaaaa tagtcagtac cacccctaca aagcggtgtc
      781 ggcgcggtgt tgtagctgcg ccggcaccgc ttttttaaat atcgcaaaga gagcaagaga
      841 aactaatttt tcataactct ctatttataa agaaaaatca gcaaaaactt gtttttgcgt
      901 ggggtgtggg catttcagga atgagaacag actcgcgttt ttccggagta tcagcggaat
      961 tattgattaa gaaacactcg acgcagagcg aaattttatg caacagcggc tgcactgcac
     1021 agggattatt tatcagttga tatgctgtgc catgatacgt cctaaaaaaa caggacagga
     1081 tgtgcaattg taataccgtc gcccgcaacg tcttacaatt accagctgct cagggtcccc
     1141 cccgacaccc ggaactgacg gagaacaacg gaaggtgaac aaacaacaac aaactgcgct
     1201 gaatatggcg cgatttatca aaagccagag cctgacactg cttgaaaaac tggatgctct
     1261 ggatgccgac gaacaggcag ccatgtgcga acgactgcac gaactcgcgg aagaactcca
     1321 gaacagcatc caggttcgct ttgagaccga aagtgaaaca ggaacataac gaagctgacg
     1381 gaggcgctca cggcttgtcc gcgagcgttt tcggcagcag acaagcccgt cagggcgcgt
     1441 cagggggttt tagcgggtgt cggggcgcag ccatgaccca gtcacgtagc gatagcggag
     1501 tgtatactgg cttaaccatg cggcatcagt gcggattgta tgaaaagtgc cccatgccgg
     1561 gtgtgaaatg ccgcacagat gcgtaaggag aaaatgcacg tccaggcgct tttccgcttc
     1621 ctcgctcact gactcgctac gctcggtcgt tcggctgcgg cgagcggtac tgactcacac
     1681 aaaaacggta acacagttat ccacagaatc aggggataag accggaaaga acatgtgagc
     1741 aacaaggcaa agccaggaaa aaaggccgcg ccgctggcgt ttttccatag gctccgcccc
     1801 cctgacgagc atcacaaaaa ccgacgctca agtcagaggt ggcgaaaccc gacaggacta
     1861 taaagatacc aggcgtttcc ccctggaagc tccctcgtgc gctctcctgt tccgaccctg
     1921 ccgcttaccg gatacctgtc cgcctttctc ccttcgggaa gcgtggcgct ttctcatagc
     1981 tcacgctgtt ggtatctcag ttcggtgtag gtcgttcgct ccaagctggg ctgtgtgcac
     2041 gaaccccccg ttcagcccga ccgctgcgcc ttatccggta actatcgtct tgagtccaac
     2101 ccggtaaggc acgccttaac gccactggca gcagccactg gtaactgatt tagaggagtt
     2161 tgtcttgaag ttatgcacct gttaaggcta aactgaaaga acagattttg gtgactgcgc
     2221 tcctccaagc cagttacctt ggttcacaga gcgccaactc tttgaacctt cgaaaaaccg
     2281 cccgccaagg cggttttttc gtttaacact ctacaactat ccatacgtgt atggcaacat
     2341 ccaatcacca ctaagtgtat gatagagatg gatatgccaa atacaattca ttaccctcat
     2401 gtaataccat ttatatccca aggaaaaata aatgctataa aaagcacgtt tggtaataac
     2461 ctgtctgata gggagtgcta cgggatatat atatggagcc agaaagcctc atctgccata
     2521 tatccattac tgcaacaact cgaagttact ttgagaaact cgattgataa agaagcgaca
     2581 aaactaatag gccaaaaatg gtgggataat gtatacaccg acacatcaaa aagcaaacac
     2641 ggtgacttca tacataatat aaacaaagca ataagaagat atgagaatga attcaagaaa
     2701 aaaaacccat caatggcaaa taccaaaata attgcacctc atgatgacat cattgcacac
     2761 acagattttt acacatggca agcggttttg agcgatgctt ttcatacaca atcaagatct
     2821 gaagcatcaa gagccttatg gcccaggctc acctacagag tactgaaggg attagataga
     2881 agcaaagatg aaggcacagc cagaattgat ttcttaaacg agctgaatga gatcagaaac
     2941 tacagaaata ggttatcgca taatgattgc atatggataa aaatacactc taaaaatttg
     3001 caatctgcag tagaaacaat aagagaaaaa ataaacaaaa tagaaggact gataaaaacg
     3061 ataaacccac aggtacacct atcattaacg aagtggggtt ccttttatca cgccaaaaga
     3121 atatgttctc aaaaagaggc cgaattgcat ctaggcaaag gaataatcaa tagcacaaca
     3181 gatgagatga acacaattct agatcaacta tacgcactaa ctgctgacgg aaagctaacg
     3241 ggtgttgtaa aacgaaatac caacaatatc gcatttcaca agttttagat cacaaaatag
     3301 aaaaggcccg acagtttcct gtcgagcctc atccaaatct cttgccatta tcacctttcg
     3361 gtggagcgtg gccttaatgt cattgtgaat ctataaaaat ttcacaatgc attaaagcga
     3421 aagctcaagg cttcactgcc atacatgata catcatcatc aggaaaaaga gcaaactatt
     3481 tcccatgatc acgccaaagc ttaccatcca ccatttacca atagatcaaa aaacacacaa
     3541 caaaaataac taaaaacgcc gattaaacca gcattatcaa atttacattt accagttaaa
     3601 aaacgataaa aacaagataa catcatgttt tatatgggaa aacaagaaac caccaaatat
     3661 tgctttatct agatttattc taataagcgt atataaagtt aaaacacaac aacttagtat
     3721 gcgactggag gaccaattgg aaaccctcaa caatttgctg gtaacgctaa cttccgcaaa
     3781 gccggaggtt ttggtttctg ttgtatcttt aggtgcaatg gttttcatgt atatgataat
     3841 aaagctattt atatctctcc ttgaccgaaa atggggtaaa aatgagcggt agaaaatttg
     3901 gcaggcttcc aaactggtgg gcccgaagct catggcttgt aaacaatgtt cgttcaaatg
     3961 agataggggg cggcattgca tcaatgaaat gcttgttagc tctatccgtc ttgattgatt
     4021 tccattcaag aacagcctca gtatcattta ccggaatgga aagactgact ggac
//
