LOCUS       CP057817                3916 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB14-C15 plasmid pRHB14-C15_6, complete
            sequence.
ACCESSION   CP057817
VERSION     CP057817.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148111
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3916)
  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 3916)
  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                     :: RH04 T1-C15
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 91.5472760156385x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:49:52
            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)                     :: 5,266
            CDSs (total)                      :: 5,142
            Genes (coding)                    :: 4,910
            CDSs (with protein)               :: 4,910
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 96 of 232
            Pseudo Genes (incomplete)         :: 130 of 232
            Pseudo Genes (internal stop)      :: 49 of 232
            Pseudo Genes (multiple problems)  :: 37 of 232
            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..3916
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB14-C15"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB14-C15_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3714..3916,1..373))
                     /locus_tag="HVW94_26315"
                     /pseudo=""
     CDS             complement(join(3714..3916,1..373))
                     /locus_tag="HVW94_26315"
                     /inference="COORDINATES: protein motif:HMM:NF025084.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="RloB domain-containing protein"
                     /name="RloB domain-containing protein"
     gene            complement(408..1763)
                     /locus_tag="HVW94_26320"
     CDS             complement(408..1763)
                     /locus_tag="HVW94_26320"
                     /inference="COORDINATES: protein motif:HMM:NF024573.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="QMM87870.1"
                     /translation="MFVRLTIENFRSVKENFTLDLSASGSNSHLVNHIYKNAEMSVGTL
                     MSAGIYGANASGKSNVLMAFEAIKYIATDSGDLKEGTRIPCYEPYALSLATNESPVRFV
                     ADFYSVEGNRFNYEVKYIKDRIIFESLDYYPSRVKANLFTRDEGDTWETIKFGGHYRGG
                     VKKIPFFPNNSYLAKAGNNAASPDIIKEAYDFFRKGIRHIGLNEKIRISSFGKREEVVS
                     ETAEVLCMVDTGVAGISVREVESDLPIRMDDDIPPEIKEMIEEDYKYRYLFSHATEEGG
                     SVSFPMSRESEGTQKLFEIIPLIRSAFNNSMVVIIDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLIFSTHNMQLMTPEKMRRDQIWFCEKNKGASALYSLDDFDKKKVKTTTPYASW
                     YDEGRFGGVPDINYLKVAKFLSGNAMTAIHDIDVDALAGDFFEEFNEDLSND"
                     /name="AAA family ATPase"
     gene            complement(2111..2434)
                     /locus_tag="HVW94_26325"
     CDS             complement(2111..2434)
                     /locus_tag="HVW94_26325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="QMM87871.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            2720..2914
                     /locus_tag="HVW94_26330"
     CDS             2720..2914
                     /locus_tag="HVW94_26330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="QMM87872.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2444..2685)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.9300000000000005e-124"
     Typing          2944..3473
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2115..2434)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.2999999999999996e-62"
ORIGIN
        1 gagagtcaga cattaaattt tcataagatg aaaaagatct tgttgtataa ccaaagtgca
       61 acaacaacca cagttcaaaa caaacacaag atatagctat atttataccg tgtctattag
      121 ctttgttcca cgccctttga tggcacaaaa cagactgcgt agtcaaatgc tcttgatcat
      181 aaacgaccca aaactcatca ccatccgcag tggatgatga attctttttc tttatcgcct
      241 catctactag ctgctctggt gtatttttcc ttgttttagg tattttaaac acactcaacg
      301 ttcttcttga attttcagat atataagatt caagatacaa cggctccgtc ttctcccctt
      361 cacaatatat atacatcact cgaggaacat ttctccctcc cttcctttta gtcattagaa
      421 agatcctcgt taaactcttc gaaaaaatca ccagcaagag catcaacatc aatatcatga
      481 atagcagtca tagcatttcc tgataggaat ttagctactt tcaaataatt aatatcagga
      541 acgccgccaa accggccctc atcataccaa ctagcataag gtgttgttgt ttttactttt
      601 ttcttatcaa aatcatctaa actgtataat gccgaagcac ctttgttttt ttcgcaaaac
      661 catatctgat cccttctcat tttttcagga gtcatcaact gcatattatg cgtagagaat
      721 attagctgag atcccttttt gttaacatca ggatcattaa atagcttaac aattagatct
      781 gcaatatgtg gatgcaaact attatctagt tcatcgataa tcacaaccat gctgttatta
      841 aatgcacttc taattaaagg tattatttca aataacttct gagtgccttc agactctctg
      901 gacataggaa aagaaacact cccgccctcc tcagttgcat gagaaaacaa atatcgatac
      961 ttataatcct cctctatcat ttcttttatt tctggaggaa tatcatcatc cattcttatt
     1021 ggtaaatcag attctacttc tcgcacggat attccagcaa cacctgtatc aaccatgcac
     1081 agaacctcag cggtttcact tactacttcc tctcttttac caaaagatga gattcttatt
     1141 ttttcattaa gacctatatg ccttatccct ttcctaaaaa agtcataagc ttctttaatt
     1201 atatctggag atgccgcatt attaccggcc ttggccaaat atgagttatt agggaagaat
     1261 ggtatttttt tcaccccacc tctataatga ccaccaaact taattgtttc ccatgtatcg
     1321 ccttcatccc tagtaaacaa attagccttt accctagacg gatagtaatc caatgactcg
     1381 aatataattc gatctttaat atatttaacc tcataattaa aacgattccc ctcaacagag
     1441 taaaaatcag ccacaaaccg aactggtgac tcattcgtag ccaacgagag ggcatacggt
     1501 tcgtagcatg gaattcgagt tccttccttc agatccccgc tatctgtagc aatatattta
     1561 atagcctcaa aagccatgag aacgttggac ttacctgacg cattcgcccc ataaatccca
     1621 gcactcataa gtgttccaac agacatctcg gcgtttttat aaatatgatt aactaaatgg
     1681 ctatttgagc cagacgcact taaatcaagc gtaaagtttt cctttacgga tctaaaattt
     1741 tcaatagtca aacgaacaaa cataggcaac tcctaaatga gttttttcgc caaaaaagcg
     1801 aaaaaaaagc aataaacaag atacagcaca tgctttaaat ttgaaacaac atcatcataa
     1861 agaatcttgt acgaccattc accacacaac atttaacata acctataaat tgtacgcacc
     1921 actgaaacgc gctgaacgcg attctgacgc agacaccgca aaaagagatg ttttaccccg
     1981 ggaaaacagg aaggatgcgt caggatcgtt ttcagctcgc tgcatagcta tgcatgaaag
     2041 cgaatggtga tcactttggg agcttacggt gttcataccg tctgttttcg acagttttct
     2101 ctccgggaag ctaatctgcc ataagcctgg ataacagggc acggtgatac tccgtaatag
     2161 cgatcagcac ctccgcatac tccctgtccc cgacacgctt gccgtcgata aagagttttt
     2221 tctgtaacgc ccccagtctc ataacttctt tcagtacccg atcatcagtc agtgagttaa
     2281 ctttcttacc gagagctgcc gcccgtaaaa aaccggaaac ggtcttgccg cattcagcag
     2341 ccctttttct gatttcctgg tcttcttctg ccgtcagacg aacagggcga ctgatagccc
     2401 gcctgcgcgt attacttcca cttcgttttg tcataaaaca tggctccgta tctgacatgg
     2461 ggtgtcgggg cgaagccctg accagggtaa ttgtaatagc gtgcatgtat gcgcggtata
     2521 acaattacac atcctgtcct gtcagcaagt tcgaattacc gacaaaggca cggcagtttt
     2581 tttggcagtg acagtattgt caggcagaaa tgcccgtcaa agagtcagac ggcagaatac
     2641 cggcggcaaa actgtcgaaa agtggtacgc gatataatca cataacgcag atgacagaca
     2701 gaacggagaa aacagaaaga tgaacaagca gcagcaaact gtactcaaca tggcgggctt
     2761 cataaaaagc cagagcctga cactgctcga aaagctggac gcactcgatg ccgacgaaca
     2821 ggccgccatg tgtgagaagc tgcacgaact cgcggaagaa ctccagaaca gcatacagac
     2881 acgctttgaa gtagaaaata gcacagagat ataacgctca gggcaggatg ccgaacggca
     2941 caacagagcg taaggagaaa atgtcacata aggcgctctt ccgcttcctc gctcactgac
     3001 tcgctacgct cggtcgttcg actgcggcga gcggtgtcag ctcactcaaa ggcggtaata
     3061 cggttatcca cagaatcagg ggataaagcc ggaaagaaca tgtgagcaaa aagcaaagca
     3121 ccggaagaag ccagcaccgc aggcgttttt ccataggctc cgcccccctg acgagcatca
     3181 caaaaatcga cgctcaagtc agaggtggcg aaacccgaca ggactataaa gataccaggc
     3241 gtttccccct ggaagctccc tcgtgcgctc tcctgttccg accctgccgc ttaccggata
     3301 cctgtccgcc tttctccctt cgggaagcgt ggcgctttct catagctcac gctgtaggta
     3361 tctcggcccg gtgtaggtcg ttcgctccaa gctgggctgt gtgcacgaac cccccgttca
     3421 gcccgaccgc tgcgtcttat ccggtaacta tcgtcttgag tccaacccgg taagacacga
     3481 cttaacgcca ctggcagcag ccactggtaa ccgatttaga ggagttagtc ttgaagtcat
     3541 gcgccagtta aggctaaact aaaaggacaa gttttggtga ctgcgctcct ctaagccagt
     3601 tacccggtac ataagttggt agctcatgta ccttctaaaa accaccgttg gtagcggtgg
     3661 tttttatttt ctatagatta caaccagcaa taagccatgg tcaatggatt aattcaaaag
     3721 ttatcaatcg catcaagtaa cttatgaaat gatgtataac atggaaattt atatggctca
     3781 tgtatatttt cgttatctga tttagcgaaa atctctagtt gcgccgcatt ttttctcgcc
     3841 ttcccaatcc tattcttcaa aacatcatat gttgaactac tacctttatt ataatttggc
     3901 aacagaccct taaacg
//
