LOCUS       CP056628                4075 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00304 plasmid pRHBSTW-00304_4,
            complete sequence.
ACCESSION   CP056628
VERSION     CP056628.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148566
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4075)
  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 4075)
  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..4075
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00304"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00304_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(298..447)
                     /locus_tag="HV149_25625"
     CDS             complement(298..447)
                     /locus_tag="HV149_25625"
                     /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="QLU22361.1"
                     /translation="MPSEYDEQPDATDALFPGEYDLFDLMAHVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(1384..2493)
                     /gene="fepE"
                     /locus_tag="HV149_25630"
     CDS             complement(1384..2493)
                     /gene="fepE"
                     /locus_tag="HV149_25630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001421676.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator"
                     /protein_id="QLU22362.1"
                     /translation="MKISKISDEHFSNYNMLPNGNEEIDLFDLIRVLWAAKIKIVGVIL
                     FFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLGVDFDINRDSAFALF
                     IKKFQSVNSLNEYMRSSPYVMEIIKKKNISALELHRAIVGLSENMKSVDDNASKKNDKS
                     SLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNELEVKTNVEKEILALD
                     EIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDGIATKLNI
                     KKSIKDVSELSGELRNRQYVVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGPSNAIIVI
                     LSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="fepE"
     gene            complement(3312..3713)
                     /locus_tag="HV149_25635"
     CDS             complement(3312..3713)
                     /locus_tag="HV149_25635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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="QLU22363.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVTRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3713..3904)
                     /locus_tag="HV149_25640"
     CDS             complement(3713..3904)
                     /locus_tag="HV149_25640"
                     /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="QLU22364.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCETLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(441..655)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="3.48e-51"
     Typing          636..1164
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.545"
                     /coverage="89.0"
                     /evalue="1.2e-144"
ORIGIN
        1 gaaaaataat ccgttcatgc ttgcatgaac gaagcagtta aagacgcttt ttcgtcgccg
       61 atgatcctta acctgcgcag atcacccagc cagaatgata attttttgcc ccttaaatgg
      121 tcatacacct aacgcagccg cgatttttat cgcaactgca tgaattaaat gaaaaaaatg
      181 gagttatttc gtgtattagc gtaatacgca acgtattaca atcatctgta acaacatgaa
      241 aataaacaaa taacatgtaa taccagcgta ttacatgtac gctggccagc gaaaaagcta
      301 taacgcttcc cggccgacag gcgggccaga atccaccggg gcgtgcaggt tctcttcagt
      361 aacatgagcc attaagtcaa aaaggtcata ttcgccggga aacagagcat cagtcgcatc
      421 cggttgttca tcatactcag atggcatggt gtgatatcca gtagctgagg ggtgttagcg
      481 ggtttcgggg cgcagccctg aaccagtcac gtagcgctag cggagtgcat actggctaaa
      541 tattttaaac cgaagtggtg atttgccaaa gtgcttcatg tggcaggagt gaaatgaggc
      601 ttaccggcgt caggagaaga tgctggttca ggtgatattc cgcttcctcg ctcactgact
      661 cgctgcgctc ggtcgttcgg ctgcggcgag cggtgcaggc ttacgaatgg ggcggaaatt
      721 tatttcctgg tggatgccag gaagaaactt aacagggata cgataaggcc gcggcaaagc
      781 cgtttttcca taggctccgc ccccctgaca agcatcacga aatctgacgc tcaaatcagt
      841 ggtggcgaaa cccgacagga ctataaagat accaggcgtt tccccctggt ggctccctct
      901 tgcgctctcc tgttcccgtc ctgcggcatc cgtgtagtgg tggaagcttt acctaaatca
      961 ccacgccccg ttccgtttag acagttcgct ccaagctggg ctgtatgcaa gaaccccccg
     1021 ttcagcccga ccgctgcgcc ttatccggta actatcgtct tgagtccaac ccggtaagac
     1081 acgacttaac gccattggca gcggccactg gtaaacagga tgtgcgagag atgtattgag
     1141 agttcttgaa gtggcagcct tactgaggct acactagaag gacagatttg gtgacatgtc
     1201 tcgcacaaga ctgttaccac ggttcagaag ttccccaact tactgaacct tcgaaaaacc
     1261 acctccccag gtggtttttt cgttttctag agtagaagac tacggctgta agggaatgat
     1321 ctcaagaaga tcctttgaac tttttataaa agttgcttat aaaatgatgc atcagcacaa
     1381 cttttactca atcacactca tctttctggc ctccatggca tgacgtaaaa gtatatagcc
     1441 acatgcaagc atccctccaa tgacagaaga aagaattaca attatggcat tacttggccc
     1501 atcctttctg accggtaacg ttgggctcaa ttgatactga aacggcataa aatcaacatc
     1561 ccccactttc gccacaacca attgattcac aacatattga cgatttcgca actccccact
     1621 caattccgaa acatccttga ttgatttttt gatgttcaat ttagttgcta taccatcaga
     1681 accgagagcc acaggaaaat ctggatcatc cttcataatc tgaccattgc tgtatacagg
     1741 tttttttatt ccagccgcat tagcaacctc cagtgaataa ttgaggcgtc gaatatctgc
     1801 attcagctgg tttctaattt ttatctcatc cagtgcaaga atttcttttt caacattagt
     1861 tttaacttct agttcatttc ttatatcttc catcaaatcc cttacaacaa gggaagaaac
     1921 ataattaata tacccagaca acacatcgtg agcttcttta cttgttggag cagtaaaact
     1981 cagagtccat gatacataca atgatgactt gtcgtttttc ttactggcat tatcatcaac
     2041 cgacttcata ttttcactca acccaacaat tgcacgatgc agttcgagag cgctaatgtt
     2101 cttcttttta attatctcca taacataagg agatgatctc atatactcat tcaacgaatt
     2161 aacggactga aatttcttaa taaacagagc aaatgcgcta tcacgattga tatcaaaatc
     2221 cactcccaga acatgaagct tggaaagctc cttatttaat tcactccatt gaacagactc
     2281 agcaggagta accacagcag aactagtcca tttttgtggc aaaacaaaag aaacaagaaa
     2341 gccaatacaa gcaaaaaata gaatcacccc aacaattttt atttttgctg cccataaaac
     2401 tctaatcaag tcaaaaaggt caatttcttc attaccattc ggcaacatgt tgtaattaga
     2461 aaaatgttcg tcagatatct ttgagatttt cattgaaaaa atacaatata ttaacatatg
     2521 gtttttttat tctatcatat gttaggaaaa atcctaaaaa ccattcagca gacatttaac
     2581 ataacatttt aattgtacgc accactaaaa cggcctcagg gcgtttctga cgggaaaccg
     2641 gtaaaacagg caacaaacca cccgaaaacc cgccagaaac gcgcaggctc tgtttttacg
     2701 gcatgcatga gtatgcacgc aagtgcatag cgcgaaaatt cacgccattc agccagggta
     2761 agtcctgttt ccggcgttct tcctatccga aaacggtgaa cggggacgca atttattgcg
     2821 tggccgtgaa gcgttgccgg cgcagccgga aaaccggttt tcagcacgat caggaatcgg
     2881 gttcgtcgac ggccggcaat cacgttatgg caagtcgccg gacgactcac cagacaattc
     2941 accggcgatt cgactcgtga cttgactcta gagtcgtaaa ggtcaaaaaa acaccaaaat
     3001 gacgattcaa ctctagagtc aagtcatcat aagttactga tagtcttaag tgagtcgtcg
     3061 atgactctat gacgagtcgt cagcaagtcg tacacgaatc gccgacgact tggattcacc
     3121 ttacagaaag taatactgcg taatttaata acccacaact aactgatatt aatgagttat
     3181 cttcaaaatt ttaattttgc gtagggtgtg ggtattttta gtggtgagga gcgttcagag
     3241 atctgacgat ttttgggaag gttcaggaac tccccgggat ggccggagag gaaaactgaa
     3301 gcatgacggg gtcaggattt tttccagaat ttccaccatg gcgccgggga ttcagttaat
     3361 tttgcctggt gattttcaag aaggagcata gcctgtttca ggctgtcaat gtgcgaatcc
     3421 ttggacaaaa gtaaggtgtt caggtgttca atctcctgtt tcagatgacg agtcacctgt
     3481 tcactctggt cagcagaggc tgtatcacgc tgttcagaga cctgtccaga atggtgttca
     3541 cccttcggtt gttcaaaggg accaaagaca cgtaaaagct ctgaagtatc taccattttt
     3601 gcattgcgtt caccgctaca ggtggacagg tcacctgctt taattaacct gtgcagtgtt
     3661 gttctactct tacccgtcag tcgggcagcc tcactaatag atactctggc catcagttac
     3721 catcctgtaa tgcatccaat ctcgaggaca gtgtacggaa aagatgctcc gcatcatcgt
     3781 ggagtgtctc acaaaggtcc gcctcaacat cgagatcaag ctcgttaagc ttctccagca
     3841 ggagcagaga ctgattctgg atgaatttag ccatgttcag cgctgttttc tgttgtttcg
     3901 tcataagggc cctcagagca tcagtgctca gtataaaccg gtaagggggt cggatgtacg
     3961 aatggttcag agaacggatc tgaggttatc ctgtagttat tttgtagttt atctgtagtc
     4021 atcgcactaa aacgcaggat taaatcatca acttttgtag tcttcctgta gtctg
//
