LOCUS       CP057925                5569 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB09-C24 plasmid pRHB09-C24_4, complete
            sequence.
ACCESSION   CP057925
VERSION     CP057925.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148054
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5569)
  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 5569)
  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                     :: RH08 T1-C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 77.4169165090354x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:06:34
            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)                     :: 5,160
            CDSs (total)                      :: 5,043
            Genes (coding)                    :: 4,941
            CDSs (with protein)               :: 4,941
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 102
            CDSs (without protein)            :: 102
            Pseudo Genes (ambiguous residues) :: 0 of 102
            Pseudo Genes (frameshifted)       :: 34 of 102
            Pseudo Genes (incomplete)         :: 61 of 102
            Pseudo Genes (internal stop)      :: 30 of 102
            Pseudo Genes (multiple problems)  :: 20 of 102
            CRISPR Arrays                     :: 1
            ##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..5569
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB09-C24"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB09-C24_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5159..5569,1..507)
                     /locus_tag="HVW37_25735"
     CDS             join(5159..5569,1..507)
                     /locus_tag="HVW37_25735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001189381.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="restriction endonuclease"
                     /protein_id="QMO67512.1"
                     /translation="MQRLSPGEFKTLISKERKSHFITPFALVYKTFCDLGYDQKNSDYF
                     LNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEERIKDMSPYDAIRDFTMEYPTH
                     IYDLALSNTQSRRSRAGKEFESILELLMMGAGIPVDVQGAIGKSFFQKNQIGKLVDLVM
                     PGVVQYTSNKRNTMLISAKTTLRERWQEVPEEVNRTGIREMYLATLDDSFSEETINILY
                     EANVVVVTTIENKNFKYKNNNRVLTFEDMLQSAMELSRKWNNVSYTDSEKEEIQQSILK
                     QIEKYSDFPYVVNYYRNRLSALFD"
                     /name="restriction endonuclease"
     gene            complement(1530..1721)
                     /locus_tag="HVW37_25740"
     CDS             complement(1530..1721)
                     /locus_tag="HVW37_25740"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="QMO67513.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1785..2108
                     /locus_tag="HVW37_25745"
     CDS             1785..2108
                     /locus_tag="HVW37_25745"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /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="QMO67517.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2050..2808
                     /locus_tag="HVW37_25750"
                     /pseudo=""
     CDS             2050..2808
                     /locus_tag="HVW37_25750"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     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            2786..3304
                     /locus_tag="HVW37_25755"
     CDS             2786..3304
                     /locus_tag="HVW37_25755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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="QMO67514.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            3311..3544
                     /gene="mbeD"
                     /locus_tag="HVW37_25760"
     CDS             3311..3544
                     /gene="mbeD"
                     /locus_tag="HVW37_25760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="QMO67515.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="mbeD"
     gene            complement(3910..5049)
                     /locus_tag="HVW37_25765"
     CDS             complement(3910..5049)
                     /locus_tag="HVW37_25765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000131511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA (cytosine-5-)-methyltransferase"
                     /protein_id="QMO67516.1"
                     /translation="MTDNIAATIKGKRERLHMTQKEFADALGLSKYGDRTIRRWERGET
                     KPTGAELKAVMDFPDTPPYPNNENGRYRMIDLFAGIGGTRLGFHQTNAVNVVFSSEWDK
                     FAQKTYHANYGDFPDGDITKIDEKDIPDHEILVGGFPCVAFSQAGLKKGFNDTRGTLFF
                     DIARIIKEKKPHAFLLENVKNLLGHDKGRTFSIIKNTLEELNYTVYYNIFAAKDFGVPQ
                     NRERIYIVGFNKEKVRNHEHFTFPTPLKTKTRVGDILEKSVDNKYTLSDALWNGHQRRK
                     LVNAAAGKGFGYGLFNENSPYTNTISARYYKDGSEILIEQKGSNPRKITPREASRLQGF
                     PSDFIIPVSDTQAYKQFGNSVAVPVINAIAEKIISTLDS"
                     /name="DNA (cytosine-5-)-methyltransferase"
     Typing          1358..1445
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.753"
                     /coverage="100.0"
                     /evalue="1.48e-35"
     Typing          complement(789..1334)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.353"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2099..3648
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.183"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cctgttgatg tgcagggggc tattgggaag tcattttttc aaaaaaacca aataggtaaa
       61 cttgtagatc ttgttatgcc aggtgtagtc cagtacacat ctaacaaaag aaatacaatg
      121 ttgatttccg ctaaaacaac gctgagggag cgatggcaag aagtacctga agaggttaat
      181 agaacaggta ttagagaaat gtatctagct acactagatg attcttttag cgaggagaca
      241 ataaatatat tatacgaggc taatgtggtc gttgtaacga cgatagaaaa taaaaatttc
      301 aaatataaaa ataataatag ggtgctaacc tttgaagata tgctacagtc agcaatggaa
      361 ttatcaagaa agtggaataa tgtaagttac acagactctg aaaaagagga aattcaacag
      421 tcaatattaa aacaaataga aaaatatagt gatttccctt atgttgttaa ttattataga
      481 aataggctta gtgctctttt tgactaaaaa actaaaagga tctcttgaga tccttttttt
      541 ctgcgcgtaa tcttggacct gtaaacgaaa aaaccaccct ggcaggtggt tttttcgaag
      601 gttagctaat cctggcagat tatctaaccg aggtaatctg gcttcagcag agcacagata
      661 ccaaatactg tccttccagt gtagccgtag ttaggccatc acttcaagaa ctctgtaagc
      721 atctggataa atctcgctct gctaatccgg ttaccagtgg ctgctgccag tggcgttaag
      781 gcgtgtctta ctgggttgga ctcaagacga tagttaccgg ataaggcgca gcggtcgggc
      841 tgaacggggg gttcgtgcac acagcccagc ttggagcgaa cgacctacac cgggccgaga
      901 taccaacagc gtgagctatg agaaagcgcc acgcttcccg aagggagaaa ggcggacagg
      961 tatccggtaa gcggcagggt cggaacagga gagcgcacga gggagcttcc agggggaaac
     1021 gcctggtatc tttatagtcc tgtcgggttt cgccacctct gacttgagcg tcgatttttg
     1081 tgatgctcgt caggggggcg gagcctatgg aaaaacgcca gcggcgcggc cttttgttgc
     1141 cctttgcctt tttactcaca tgttctttcc ggccttatcc cctgattctg tggataaccg
     1201 tatttccgcc tttgagtgag ccggcaccgc ttgccgcagc cgaacgaccg agcgcagcga
     1261 gtcagtgagc gaggaagcgg aagagcgcct gatgcggtat gttctcctta cgcatctgtg
     1321 cggcatttca cacccggcat ggcgtgcttt tcatacaatc cgcactgatg ccgcatagtt
     1381 aagccagtat acactccgct atcgctacgt gactgggtca gggctgcgcc ccgacacccc
     1441 ctaaaacctg ctgacgcgcc ctgacggact tgtctgctcc cggcatccgc tcacagacaa
     1501 gctgtgaccg tctccgggag ctgcatgtgt cagaggtttt caccgtcatc cccgaaacgt
     1561 gcgaggcagc tgcggtaaag ctcatcggcg tggtcgtgaa gcgattcaca gatgtctgcc
     1621 tgttcatccg cgtccagttc gttgagcttt tccagcagcg ttaatgtctg gcttctgata
     1681 aagcgcgcca tgttaagggc tgttttttcc tgtttagtca ctgatgcctc cgtgtaaggg
     1741 ggatttctgt tcatggggta atgataccga tgaaacgcga gaggatgctc acgatacggg
     1801 ttactgatga tgaacatgcc aggttacttg aacgctgtga gggtaaacaa ctggcggtat
     1861 ggatgcggcg ggtctgcttg ggtgagccgg ttgcccgttc cgggaaactg ccgacactgg
     1921 caccgccgtt actgcgtcag ctggccgcca tcggaaataa cctgaatcag acagcccgta
     1981 aggtgaacag cgggcagtgg tcttccggtg accgggttca ggtagtggcc gcactgatgg
     2041 ccatcgggga tgagctgcgc cggctgcgtc tggccgtcag ggaacagggg gcgcgggatg
     2101 atagttaaat ttcatgccag gggaaaaggt ggtggcagtg gtccggttga ttacctgctg
     2161 gggagggagc gtaaccgcga aggcgcaacg gtgcttcagg gtaatccgga agaagtccgg
     2221 gaactcatcg atgccacgcc atttgcgaag aaatacacgt ccggtgttct gtcgttcgcg
     2281 gagaaggagc tgccgccggg aggacgtgaa aaagtgatgg cgagctttga gcgtgtactg
     2341 atgcccggtc tcgaaaaaaa tcagtacagc atcctgtggg tggagcacca ggacaaggga
     2401 cggcttgagc tgaattttgt cattccgaac atggagctac agaccggaaa acgtctccag
     2461 ccgtactacg accgcgcaga caggccgaga attgatgcct ggcagacgct ggtgaatcac
     2521 cattacggac tgcatgaccc caacgccccg gagaaccgcc ggacgctgac ccttcctgat
     2581 aacctgccgg aaacgaaaca ggcacttgct gagagcgtta cacgcggtat agacgcactt
     2641 taccatgccg gagagataaa aggacgtcag gatgtgattc aggcgctcac agaggcgggg
     2701 cttgaagtgg tcagggtgac gcgaagcagt atcagcattg cagacccgaa cggcgggagg
     2761 aatatcagac tgaaaggagc gttttatgag caatctttta cagacgggcg cggagttcga
     2821 gaaaaagctg aaagagagag ccgaatctac agagaaaatg ctgaacgacg agttcaggaa
     2881 gctcggcgag tctgtcagcg aggctgtgac ctcaaacgag acgaaaatca gagacgctat
     2941 agccctgttc acagcctcga cagagaaatc gctggaaaaa caccgggaag gggtgaaaga
     3001 ggcgatgatg cagcacagga aggacgtgtt aaagctggca gggaatacgg gcatgatgtt
     3061 actggggata gtctttctcc tgtttaccgc gagtggcggg acgctctggt atcttggcgg
     3121 acggatacag acgaacctgg aagaaatcag gaagcaggaa gagacattgc agaaactgaa
     3181 cgcgaagaca tggggcgtgg agtttgtgca ggacgggaac aggaaattcc ttgtccttcc
     3241 gtacgggaaa tcagcggagg tgattccctt tcaggggaaa gagtgggtac atctgaagga
     3301 gtgactcaga gtgacagagc tggaaataca tttgctgaac gccttagagc agctgcaaca
     3361 ggactatatg cagcggctga gcgaatggga gagcgccttc gtggaattgc agaagatgtt
     3421 ttcgcttacg caacgggaca acgcgatgct gaacgagcgg gtcatgcagt tgagtcagca
     3481 ggtgcagcac ttgagcgagc agacagaacg cttgagccag ttatacagcg agaactggag
     3541 ataagagagg cacggctgat acaggagcgc gaacatgcgt tatccctgga acgggagcgt
     3601 cagccggaaa tacaggaacg cacgctggat ggtccttcgc tgggatggtg aaaccatgaa
     3661 aaatggcagc ttcagtggat taagaggggt taatgtggcc tgtaccatct ggttgcatag
     3721 gtattcatgc ggttaaaatt tatcaggcgc gatcgcggca gtttttcggg tggtttgttg
     3781 ccatttttac ctgtctgctg ccgtgatcgc gctgaacgcg ttttagcggt gcgtgtaatg
     3841 cgacgttatg gtaaatccat atgggggggg aattggattc tgggccgcat tgtgtcctta
     3901 tgacttagtt tatgaatcta aggtcgatat gattttttct gctattgcat tgataacagg
     3961 gactgcgact gaattcccaa attgcttata agcctgtgta tccgatacag ggataataaa
     4021 atcactagga aacccttgaa gtcttgacgc ttcccgcgga gttatttttc ttgggttact
     4081 tcctttttgc tctattaata tttcgctacc atctttatag tacctcgcac ttatggtatt
     4141 agtatatggg ctattttcat taaataaacc atacccaaag cctttaccgg ctgctgcatt
     4201 tacaagtttc ctgcgttggt gtccattcca gagcgcatct gatagcgtat atttattgtc
     4261 tacgctcttt tcaagaatat ctccaactct tgtttttgtt tttaatgggg ttggaaaagt
     4321 aaaatgttca tgatttctta ctttttcttt attaaagcct acaatgtata tgcgttctct
     4381 attttgtgga acaccaaagt cttttgcagc gaagatattg taatacacag tgtaattcaa
     4441 ttcttcaagt gtgtttttta ttattgaaaa agttctacct ttatcatgtc ctagcaagtt
     4501 ttttacattt tcaagtaaaa aagcatgagg ttttttttcc tttattatcc ttgctatatc
     4561 aaaaaacaaa gttcctcttg tatcattaaa tccttttttg agccctgctt gagagaatgc
     4621 tacgcaagga aacccaccga caagaatttc atgatcagga atatcttttt catcgatttt
     4681 tgttatgtcc ccatcaggga aatcaccata atttgcatga tatgtctttt gagcaaactt
     4741 atcccattcg ctggaaaaaa caacatttac agcgttagtt tgatgaaatc caagtctggt
     4801 tccaccgatt ccagcaaata aatcgatcat gcgatatctg ccattctcgt tgtttgggta
     4861 aggtggtgtg tctggaaagt ccataactgc ttttagttcc gccccagtag gttttgtttc
     4921 cccgcgctcc catcttctta tggttctgtc tccatatttt gaaagaccaa gggcgtctgc
     4981 aaactctttt tgagtcatat gaagtctttc tctttttcct ttgattgttg ctgcgatatt
     5041 atcagtcatg catgtctacc agaattaagt gttggcttta ggacaatttg tcctgttttg
     5101 attccaatta tgaacgtgca tgaaaaaact ttcaagtaga tataaaaggt tattttttat
     5161 gcaaagattg agtcctggtg aatttaaaac tctaatttct aaagagagaa agtcgcattt
     5221 tattacgcca tttgctttgg tttataaaac attttgtgat ttagggtatg atcaaaaaaa
     5281 tagtgattat tttttgaata atccaagtga atatataatt gcaatgagaa aaaactgttg
     5341 gaaagaattt gaaccatttg aaaaagaatt cacaacaaga atgttatcat atcttattga
     5401 tgaagaaaga ataaaagata tgagtcctta tgatgccatt cgtgatttta cgatggaata
     5461 ccctacacac atatatgatt tggcactgtc taacactcaa tccagacgta gcagggcagg
     5521 aaaagagttt gagtctattc ttgagctatt aatgatgggg gcaggaatt
//
