LOCUS       CP056629                4018 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00304 plasmid pRHBSTW-00304_5,
            complete sequence.
ACCESSION   CP056629
VERSION     CP056629.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148566
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4018)
  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 4018)
  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                     :: WTP2 T1-00304
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 105.394030148214x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 00:08:05
            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)                     :: 5,137
            CDSs (total)                      :: 5,022
            Genes (coding)                    :: 4,738
            CDSs (with protein)               :: 4,738
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 284
            CDSs (without protein)            :: 284
            Pseudo Genes (ambiguous residues) :: 0 of 284
            Pseudo Genes (frameshifted)       :: 94 of 284
            Pseudo Genes (incomplete)         :: 171 of 284
            Pseudo Genes (internal stop)      :: 45 of 284
            Pseudo Genes (multiple problems)  :: 24 of 284
            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..4018
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00304"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00304_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3733..4018,1..200))
                     /locus_tag="HV149_25645"
     CDS             complement(join(3733..4018,1..200))
                     /locus_tag="HV149_25645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012565228.1"
                     /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="QLU22368.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMISQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIQEQKSTQAMLSEKNNGVQLTTCGEERRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(175..720)
                     /locus_tag="HV149_25650"
                     /pseudo=""
     CDS             complement(175..720)
                     /locus_tag="HV149_25650"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus and 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            complement(878..1201)
                     /locus_tag="HV149_25655"
     CDS             complement(878..1201)
                     /locus_tag="HV149_25655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="QLU22369.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(2391..2603)
                     /locus_tag="HV149_25660"
     CDS             complement(2391..2603)
                     /locus_tag="HV149_25660"
                     /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="QLU22365.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            complement(2858..3385)
                     /locus_tag="HV149_25665"
     CDS             complement(2858..3385)
                     /locus_tag="HV149_25665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLU22366.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     gene            complement(3514..3729)
                     /gene="mbeD"
                     /locus_tag="HV149_25670"
     CDS             complement(3514..3729)
                     /gene="mbeD"
                     /locus_tag="HV149_25670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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="QLU22367.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSQG"
                     /name="mbeD"
     Typing          complement(1315..1492)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          1439..1962
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.623"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2..888)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.635"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3423..4018)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.427"
                     /coverage="99.0"
                     /evalue="2.26e-100"
ORIGIN
        1 gtgcgttggc tcatggctga ggacagcttc cggtcgtggt cgaggatggc ggcgctgatt
       61 ctcttctcgc tttcgctcag ttccgctctg acagacttct cgtgctcgct gaatgcggct
      121 ttcagcatct cgccggtagt ctgctgctgc gctttcgatt tctgctctaa gtccttcgcc
      181 agcgttaaaa gactgttcat agatggctcc cttcagtcgg atgtttcgcc ccccgtcagg
      241 gtcggcaatg ctgatgctgc ttttcgtggt gcgcaccacc tcaaaacccg cactttccag
      301 cgcctcagtg acgtcctgac gggttttcag ctccccggat gaggcaaggg aaagtaggcc
      361 gcgcgtaatc gcctgggcgg cttcctgctt cgcttccggc agcgcggacg gtgtaaccag
      421 cgcccgccgg ttttccggcg cgttcgggtc gtgcagcccc agtctgccgt tcactatggt
      481 ctgccaggca tcaatgcgcg gacggtcggc gcggtcgtaa tacggctgga gacgtctgcc
      541 ggtcagcagc tccgtgttcg ggatcaggaa gttcagctcc agccgccctt tgtcccggtg
      601 ctcaacccac agtacgctgt actggtcttt atcgagtccg ggcatcagaa cccgctcaaa
      661 gctcgccatc agcttttcac gctggccggg cggcaaatcc tgttcggcaa aagacagcac
      721 gccggaggtg tatttcttgg cgtaaggcga ggcgtcaata agctcccgca cttcctccgg
      781 cttaccctgc agaacgctgg cgccgtcgcg ctgccggtct ttccccagca gataatccac
      841 cggaccgccg ccaccgccgc ggcctctggg atgaaactta acgatcatcg tctgccccct
      901 tttccagcac ggcgtgccgc agccgctcga gtccggcatc aatggccatc agcacggcga
      961 caacctgcac gcgatcgtgc ccagtaccgc caccggcgtt aacctgccgg gcaatctggt
     1021 tgaggttgtt acccatgccg gcaagctgac gaagcagcgc cggcgagatg gatggaagtt
     1081 tgccagcacg cgagggcttt tcgtccaggc atatctggcg catccaggcc gcgagttgtt
     1141 taccctcaca gcgctccaga agtcggcggt gctcgtcttc tgtcacccac atagtgagca
     1201 ttttgttgcg cttttctgcc aaaccatcct ccggataaca ccggttcggg cgggaaattt
     1261 tttcctgtcc ggagcggtgt tgggcaagcc cgcagggcgc ggcagtactt ttcagcgggt
     1321 ttcggggcgc agccctgaac cagtcacgta gcgctagcgg agtgtatact ggcttaacat
     1381 ggtaaatcgg agtggggatt caggaaagtg cttcatgtgg cagggagaaa atgctgctgt
     1441 ggggcgtaag tgcgaaatgc agatcccggt gaaatgacgc ctcctcgctc actcggtcgc
     1501 tgcgctcctg ccgtgagact gcggcgggcg ttgccagctt acgaatggct ggataaagag
     1561 actaagcgga aatcaatcag aaagggcgga aaaaggatgc ggcgttgccg tttttccata
     1621 ggctccgccc ccctgacaag catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc
     1681 cgacaggact ataaagatcc caggcgtttc cccctggtag ctccctcgtg cgctctcctg
     1741 ttcctgcctt tcggtttacc ggtgtcattc cgctgttatg gccgcgttta tctcattcca
     1801 cgcctgacac tcagttccgg gtaggcagtt cgctccaagc tggactgtat gcacgaaccc
     1861 cccgttcagt ccgaccgctg cgccttatcc ggtaactatc gacttgagtc caacccggaa
     1921 agacacgaca aaacgccact ggcagcagcc actggtaact gatttagagg agttagtctt
     1981 gaagttatgc gccggttaag gctaaactga aaggacaagt tttggtgact gtgctcctcc
     2041 aagccagtta cctcggttca aagagttgct gctctgagaa ccttcgaaaa aaccgccttg
     2101 ctgggcggtt ttttcgttta cagtgctaag agattacgat tctccatgaa tgatctcaag
     2161 aagatccgtt taaaaaagcg ggttttatgg ggggataaag ttcgtctagc ccagtcactt
     2221 tggattacag ctaggtttcg taagccatgc aagaatgcct gtaactaaca aaataggccc
     2281 tgcaacgtac gtaacataga ctccaacata cgacactgtg aaacatatga gtacgtatat
     2341 agacagtgtt gtccaaaaaa tgactgttgt tttacagtga atccactctt tcatttttca
     2401 ataaacccca caccgtctgg agatcttatt atcgttttgc caggattagc tttcgcccaa
     2461 accaaagcat cttgaaaaga agagaatttt ttttttgaat ttttagtttt tcggcgatct
     2521 tctcgaaaat attcgctgtt attctcatca attatccgat caaaatcagc accagctcca
     2581 aaggtacgct caaaatcccc cattttctgc ccccattaaa tttaataaaa aaacagattt
     2641 aaaatatcca aaagacactc ttatttacca taacatccct tgttcgcacc gccgcagaca
     2701 gcctcagcac cgttctgcgc catgaaccgc aaaagagcac ctcttaccac gtaaaaacgc
     2761 cgataaatgc cccccgtaag ttcttacggt atgcatagtt atgcacggaa atgaactgac
     2821 actctgttca atggattttc atgctgtaag cagtatttta gtcttctatg ccccctcgaa
     2881 acacacctgt tcttgtgtag atcttttcga cccaagatgg tcttttatcc gagttcatgc
     2941 agccgtacag gaacacacct gttttgggtt tatagctccc cccctcctgt ggctggttat
     3001 ctacaaatga ataatcaatc ttttcacctt tgactgaagc acgcccccca acatgaacta
     3061 aagaccagtg ctcatgcatc acatggcttt caatcaatcc aaatgaagaa aaaccccatg
     3121 aatcaaaaaa gaccttgagt ccgtcagacg caccaacagg agtaatgatt gcaaattcaa
     3181 cctgctcacc agtaccttca aggtaagaag gtttctcgac gttaattaca gatgccccct
     3241 tcacctgata acctttacag gtaagatata agtccctccc ggctgacggt tttgtatatg
     3301 taacgttgtc gttattctcc gcagcagcga ctgtaaatga catagccaaa accaccgaga
     3361 ctgagcaagc ccagaaacat ttcataacgc atcccttttc attgattaac tacattccaa
     3421 gctcaaaacc tttctgccgc tgcgatcgtt ccagctccag cgctttctgg tgctgcgccg
     3481 cgcgctcctg ctcccggtgc gcctcgatgc cattcagcct tgcgacaatc ggcgcagctg
     3541 atcgctcaaa ctctgcacct gcctgctcaa gcccgtgacg cgctcgctca gcgccgcgtt
     3601 ctcccgttgc ataagcccag acatcgtccg ccattccgcg aaggcgttct cccactcgtc
     3661 cagccttttc gagtagtcct gctgtagctg ctctaatgcg ctcagcaact gtttttccag
     3721 ttccgtcatg tgctatttcc ccgccagtat catccagctc gaatcctctc cgaatcttcc
     3781 cgcttccggg ttcaccctca cgcagcggcg tctctcctcc ccgcaggtcg tgagctggac
     3841 gccgttgttc ttctctgaaa gcatggcctg cgtgctcttc tgttcctgga tggtcgtgta
     3901 gttgtcgagt atctgttgcc cctgccacca cagaatgccc gcgctcgagg cgatcagtag
     3961 cgcggagacc aggactatgg tcagccacgt ctggctgatc atacgcagca tccctttc
//
