LOCUS       CP057687                4245 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB17-C17 plasmid pRHB17-C17_2, complete
            sequence.
ACCESSION   CP057687
VERSION     CP057687.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148149
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4245)
  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 4245)
  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                     :: RH03 T2-C17
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 103.653611698756x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:23:26
            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)                     :: 4,326
            CDSs (total)                      :: 4,205
            Genes (coding)                    :: 4,099
            CDSs (with protein)               :: 4,099
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 106
            CDSs (without protein)            :: 106
            Pseudo Genes (ambiguous residues) :: 0 of 106
            Pseudo Genes (frameshifted)       :: 39 of 106
            Pseudo Genes (incomplete)         :: 57 of 106
            Pseudo Genes (internal stop)      :: 24 of 106
            Pseudo Genes (multiple problems)  :: 13 of 106
            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..4245
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB17-C17"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB17-C17_2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3691..4245,1..33))
                     /locus_tag="HVX32_21605"
     CDS             complement(join(3691..4245,1..33))
                     /locus_tag="HVX32_21605"
                     /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="QML58626.1"
                     /translation="MIRNIFFASAIVVAISGCTAMDKLAGMGVVSQQTSTFDNSTVIDV
                     SPNSLYDPNSTWGTQLQLGAIWSSSQPDQVGLILSYNSNVSNGSSAYLGFIGIDINIDG
                     KISSYKAQQLTNLSNSGYNTVSKTIYTSSKNTVVIPYEVLEKMVSAKNCRLRIHTTEGN
                     QDIDFSAASIPGGKATAIVSIKEFMTKVAKVK"
                     /name="hypothetical protein"
     gene            1109..1432
                     /locus_tag="HVX32_21610"
     CDS             1109..1432
                     /locus_tag="HVX32_21610"
                     /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="QML58627.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1371..2135
                     /locus_tag="HVX32_21615"
                     /pseudo=""
     CDS             1371..2135
                     /locus_tag="HVX32_21615"
                     /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            2110..2595
                     /locus_tag="HVX32_21620"
     CDS             2110..2595
                     /locus_tag="HVX32_21620"
                     /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="QML58623.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            2599..2814
                     /gene="mbeD"
                     /locus_tag="HVX32_21625"
     CDS             2599..2814
                     /gene="mbeD"
                     /locus_tag="HVX32_21625"
                     /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="QML58624.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSKG"
                     /name="mbeD"
     gene            2943..3461
                     /locus_tag="HVX32_21630"
     CDS             2943..3461
                     /locus_tag="HVX32_21630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016246513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QML58625.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITHTKPLARSDLYLTCKGYQV
                     KGASVINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSPFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     Typing          823..995
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="100.0"
                     /evalue="9.34e-71"
     Typing          complement(353..898)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.078"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          1423..2906
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.313"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gatcgcagaa gcaaaaaaaa tattccttat catttcgtta tcctattttt ttcttgttac
       61 cagagagtga aaaaagcatc gtattaccga aactattttg cacgcgattt tctttttaag
      121 aaggattttg aaaggatacg ggcagatctt cttgagatcc ttaagcgagc gtcgtaatct
      181 cttgaccacg aaacgaaaaa accgccttgc agggcggttt ttcgaaggtt ctcagagcta
      241 ccaactcttt gaaccgaggt aactggcttg gaggagcgca gtcaccaaaa cttgtccttt
      301 cagtttagcc ttaaccggcg cataacttca agactaactc ctctaaatca gttatcagtg
      361 gctgctgcca gtggcgcttt tgcatgtctt tccgggttgg actcaagatg atagttaccg
      421 gacaaggcgc agcggtcgga ctgaacgggg ggttcgtgca tacagtccag cttggagcga
      481 actgcctacc cggaactgag tgtcaggcgt ggaatgagat aaacgcggcc ataacagcgg
      541 aatgacaccg gtaaaccgaa aggcaggaac aggagagcgc acgagggagc caccaggggg
      601 aaacgcctgg tatctttaag tcctgtcggg tttcgccacc actgatttga gcgtcagatt
      661 tcgtgatgct tgtcaggggg gcggagccta tggaaaaacg gcttcgccgc ggccttctca
      721 tttccctgtt aagttccttc ttggcattta ccaggaaact tccgccctat tcgtaagccc
      781 gcaccgctcg ccgcagccga acgaccgagc gcagcgagtc agtgagcgag gaagcggaat
      841 atatcctgtc tcatatattc tgcttacgct ccgctgctgc atttttctcc tgccacatga
      901 agcgcttcac tgattcccgc acccgtgcca acatagtaag ccagtataca ctccgctagc
      961 gctacgtgac tggttcaggg ctgcgccccg aaacccgcta aaaccactga cgcgcctgcg
     1021 gcttgtccaa caccgcgccg accgggaaaa gatttcccgc ccgtcccggc gttatcagga
     1081 ggccggattg gcagacaaac gcagcaaaat gctcacgatg tgggtgaccg aagatgagca
     1141 ccgccgtctg ctggagcgct gcgacggtaa acagcttgca gcctggatgc gccagacgtg
     1201 cctggacgag aaacccgccc gcgccggcaa gcttccctcg ctctcgccgg cgctgcttcg
     1261 tcagcttgcc ggcatgggga acaacctcaa ccagattgcc cggcaggtta acgccggtgg
     1321 tggcagcggg cacgaccgcg tgcaggtcgt cgccgcgctg atggccatcg atgccggact
     1381 cgagcggctg cggcatgccg tgctggaaaa gggtgcagac gatgatcgtt aagtttcacc
     1441 cgcgagggcg cggcggtggc gccggtccgg tggattatct gctggggaaa gaccgacagc
     1501 gcgacggcgc caccgttctg caggggaagc cggaagaagt cagggagctt atcgacgcct
     1561 cgccctacgc aaaaaagtac acatccggcg tcctgtcctt tgccgaaaag gatttaccgc
     1621 ccgggcagcg cgaaaagctg atggcgagct ttgaacgggt tctgatgccc ggactcgata
     1681 aagaccagta cagcgtgttg tgggttgagc accaggataa ggggcggctg gagctgaact
     1741 tcctgatccc gaacacggag ctgctgaccg gcaggcgtct ccagccgtat tacgaccgcg
     1801 ccgaccgtcc gcgcattgat gcctggcaga ccatcgtgaa cggcaggctg gggctgcatg
     1861 acccgaacgc gcctgaaaac cggcgggcgc tggtcacgcc gtccgcgctg ccggaaacga
     1921 agcaggaagc cgctcaggca attacacggg gtttactggc cttagcctcg tccggggagc
     1981 tgaaaacccg ccaggacgtc actgaggcgc tggaaagcgc aggttttgag gtggtacgca
     2041 ccacaaaaag cagcatcagc attgccgacc cggacggggg gcgaaacatc cgactgaagg
     2101 gagccatcta tgaacagtct tttaacgctg gcaaaggact tagagcagaa atcgaaagcg
     2161 cagcagcaga gtaccggcga gatgctgaaa gccgcattca gcgagcacga gaagtctgtc
     2221 agagcggaac tgagcgaaag cgagaagaga atcagcgccg ccatcctcga ccacgaccgg
     2281 aagctgtcct cagccatgag ccagcgcacg aaaggcatgg tgcgtatggt cagccagacg
     2341 tggctgacca tcgtcctggt gtctgcactg ctgacagcat cgggcgcaag cattctgtgg
     2401 tggcaggggc agcagatact cgacaattac acgactatcc gggagcagaa gcgcacgcag
     2461 gccatgctgt ccgagaggaa cagcggcgtg cagctctcga cctgcggaga gcagagacgc
     2521 cgctgcgtga gggtgaaccc ggaagcggga cggttcggag aggattcgag ctggatgata
     2581 ctggcgggga aatagcacat gacggagctg gaaaaacagt tgctgagcgc attagagcag
     2641 ctacagcagg actactcgaa aaggctggac gagtgggaga acgccttcgc ggaatggcgg
     2701 acgatgtctg gtcttatgca acgggagaac gcggcgctga gcgagcgcgt cacgggcttg
     2761 agcaggcagg tgcagagttt gagcgatcag ctgcgccggt tgtcgaaagg ctgaactcga
     2821 ttgaagcaca caggcagcag gagcgggcgg cgcagcatca gaaaacgctg gagctggaac
     2881 gatcgcagcg gcagaaaggt tttgagcttg gaatgtagtt aatcaatgaa aagggatgcg
     2941 ttatgaagtg tttctgggct tgctcagtct cagtagtttt ggttatgtca tttacagtcg
     3001 cttctgcgga gaacattaca cacacaaaac cgttagccag gagcgactta tatcttacct
     3061 gtaaaggtta tcaggtgaag ggggcgtctg taattaacgt cgagaaacct tcttaccttg
     3121 aaggtacagg tgagcaggtt gagtttgcaa tcatttctct cggtgatgca tctgatggac
     3181 tcaaggtttt ttttgattca tggggttttt ctccttttgg attgattgaa agtcatgtaa
     3241 tgcatgagca ctggtcttta gttcatgttg gggggcgtgt ttcagtcaag ggtgaaaaga
     3301 ttgattattc atttgtagat aaccagccac aggagggtgg gagctataaa cccaaaacag
     3361 gtgtgttcct gtatggctgc attaactctg ataaaaggcc atcttgggtc gaaaaaatct
     3421 acacaagaac aggcgtgttt cgagggggca tagaagacta aaatactgcg tacagcatga
     3481 aaattcattg aacagagtgt tagttcattt tcgtgcatgg ctatgcatac acgcaaaact
     3541 tatcagcgcg attccgggcg gttttcggtg agaagacggg ctcttttgtg gctcaggacg
     3601 gaaaaacgcc ctgagcgcgt ctgagcggtg cgcccaaggg atgttatggt aaatagtgtg
     3661 aagtgccgcc tgtaatggcg gcttagttac ctatttaact tttgccactt tagtcatgaa
     3721 ttctttaatg gaaacaatcg cagtagcttt ccccccaggg atacttgcag ctgagaaatc
     3781 gatgtcttga ttaccttcag ttgtatgtat gcgaaggcgg cagtttttag ccgacaccat
     3841 cttttctagc acttcatatg ggataacaac ggtatttttg ctggatgtgt agatcgtttt
     3901 ggatacagta ttgtatccac tgttacttag attagttagt tgctgtgctt tatagctaga
     3961 tatcttgcca tcaatattta tatctattcc tatgaaacct aagtatgcgg aacttccatt
     4021 agatacattt gaattgtagg aaaggatcag ccctacttga tctggttggg agctggacca
     4081 tattgctcct aactgaagtt gtgttcccca agtgctgttc gggtcgtata gcgaatttgg
     4141 agagacatct atgacagttg agttgtcaaa agtggatgtt tgttgagaaa ccacacccat
     4201 tcccgccagt ttatccattg ctgtacagcc agagatggct actac
//
