LOCUS       CP057237                5513 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB32-C15 plasmid pRHB32-C15_4, complete
            sequence.
ACCESSION   CP057237
VERSION     CP057237.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148319
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5513)
  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 5513)
  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                     :: RH13 T3-C15
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 162.631392567373x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:58:50
            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)                     :: 4,933
            CDSs (total)                      :: 4,813
            Genes (coding)                    :: 4,733
            CDSs (with protein)               :: 4,733
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 36 of 80
            Pseudo Genes (incomplete)         :: 39 of 80
            Pseudo Genes (internal stop)      :: 17 of 80
            Pseudo Genes (multiple problems)  :: 12 of 80
            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..5513
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB32-C15"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB32-C15_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5047..5513,1..673)
                     /locus_tag="HVZ02_24635"
     CDS             join(5047..5513,1..673)
                     /locus_tag="HVZ02_24635"
                     /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="QME93118.1"
                     /translation="MTDNIAATIKGKRERLHMTQKEFADALGLSKYGDRTIRRWERGET
                     KPTGAELKAVMDFPDTPPYPNNENGRYRMIDLFAGIGGTRLGFHQTNAVNVVFSSEWDK
                     FAQKTYHANYGDFPDGDITKIDEKDIPDHEILVGGFPCVAFSQAGLKKGFNDTRGTLFF
                     DIARIIKKKKPHAFLLENVKNLLGHDKGRTFSIIKNTLEELNYTVYYNIFAAKDFGVPQ
                     NRERIYIVGFNKEKVRNHEHFTFPTPLKTKTRVGDILEKSVDNKYTLSDALWNGHQRRK
                     LVNAAAGKGFGYGLFNENSPYTNTISARYYKDGSEILIEQKGSNPRKITPREASRLQGF
                     PSDFIIPVSDTQAYKQFGNSVAVPVINAIAEKIISTLDS"
                     /name="DNA (cytosine-5-)-methyltransferase"
     gene            complement(1039..1272)
                     /gene="mbeD"
                     /locus_tag="HVZ02_24640"
     CDS             complement(1039..1272)
                     /gene="mbeD"
                     /locus_tag="HVZ02_24640"
                     /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="QME93119.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(1279..1797)
                     /locus_tag="HVZ02_24645"
     CDS             complement(1279..1797)
                     /locus_tag="HVZ02_24645"
                     /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="QME93120.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(1775..2533)
                     /locus_tag="HVZ02_24650"
                     /pseudo=""
     CDS             complement(1775..2533)
                     /locus_tag="HVZ02_24650"
                     /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            complement(2475..2798)
                     /locus_tag="HVZ02_24655"
     CDS             complement(2475..2798)
                     /locus_tag="HVZ02_24655"
                     /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="QME93122.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2862..3086
                     /locus_tag="HVZ02_24660"
     CDS             2862..3086
                     /locus_tag="HVZ02_24660"
                     /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="QME93121.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENLLTSPSGRVSRF"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4020..4937)
                     /locus_tag="HVZ02_24665"
     CDS             complement(4020..4937)
                     /locus_tag="HVZ02_24665"
                     /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="QME93123.1"
                     /translation="MQRLSPGEFKTLISKERKSHFITPFALVYKTFCDLGYDQKNSDYF
                     LNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEERIKDMSPYDAIRDFTMEYPTH
                     IYDLALSNTQSRRSRAGKEFESILELLMMGAGIPVDVQGAIGKSFFQKNQIGKLVDLVM
                     PGVVQYTSNKRNTMLISAKTTLRERWQEVPEEVNRTGIREMYLATLDDSFSEETINILY
                     EANVVVVTTIENKNFKYKNNNRVLTFEDMLQSAMELSRKWNNVSYTDSEKEEIQQSILK
                     QIEKYSDFPYVVNYYRNRLSALFD"
                     /name="restriction endonuclease"
     Typing          complement(3083..3170)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.876"
                     /coverage="100.0"
                     /evalue="3.19e-37"
     Typing          3194..3739
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.536"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(936..2485)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.038"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tacaagagga actttgtttt ttgatatagc aaggataata aagaaaaaaa aacctcatgc
       61 ttttttactt gaaaatgtaa aaaacttgct aggacatgat aaaggtagaa ctttttcaat
      121 aataaaaaac acacttgaag aattgaatta cactgtgtat tacaatatct tcgctgcaaa
      181 agactttggt gttccacaaa atagagaacg catatacatt gtaggcttta ataaagaaaa
      241 agtaagaaat catgaacatt ttacttttcc aaccccatta aaaacaaaaa caagagttgg
      301 agatattctt gaaaagagcg tagacaataa atatacgcta tcagatgcgc tctggaatgg
      361 acaccaacgc aggaaacttg taaatgcagc agccggtaaa ggctttgggt atggtttatt
      421 taatgaaaat agcccatata ctaataccat aagtgcgagg tactataaag atggtagcga
      481 aatattaata gagcaaaaag gaagtaaccc aagaaaaata actccgcggg aagcgtcaag
      541 acttcaaggg tttcctagtg attttattat ccctgtatcg gatacacagg cttataagca
      601 atttgggaat tcagtcgcag tccctgttat caatgcaata gcagaaaaaa tcatatcgac
      661 cttagattca taaactaagt cataaggaca caatgcggcc cagaatccaa ttccccctcc
      721 atatggattt accataacgt cgcattacac gcaccgctaa aacgcgttca gcgcgatcac
      781 ggcagcagac aggtaaaaat ggcaacaaac cacccgaaaa actgccgcga tcgcgcctga
      841 taaattttaa ccgcatgaat acctatgcaa ccagatggta caggccacat taacccctct
      901 taatccactg aagctgccat ttttcatggt ttcaccatcc cagcgaagga ccatccagcg
      961 tgcgttcctg tatttccggc tgacgctccc gttccaggga taacgcatgt tcgcgttcct
     1021 gtatcagccg ttcgtccctt atctcctgtt ctcgctgtat aactggctca agcgttctgt
     1081 ccgctcgctc aagtgctgca cctgctgact caactgcatg acctgctcgt tcagcatcgc
     1141 gttgtcccgt tgcgtaagcg aaaacatttt ctgcaattcc acgaaggcgc tctcccattc
     1201 gctcagccgc tgcatatagt cctgttgcag ttgctctaat gcgttcagca aatgtatttc
     1261 cagctctgtc actctgtgtc actccttcag atgtacccac tctttcccct gaaagggaat
     1321 cacctccgct gatttcccgt acggaaggac aaggaatttc ctgttcccgt cctgcacaaa
     1381 ctccacgccc catgtcttcg cgttcagttt ctgcaatgtc tcttcctgct tcctgatttc
     1441 ttccaggttc gtctgtatcc gtccgccaag ataccagagc gtcccgccac tcgcggtaaa
     1501 caggagaaag actatcccca gtaacatcat gcccgtattc cctgccagct ttaacacgtc
     1561 cttcctgtgc tgcatcatcg cctctttcac cccttcccgg tgtttttcca gcgatttctc
     1621 tgtcgaggct gtgaacaggg ctatagcgtc tctgattttc gtctcgtttg aggtcacagc
     1681 ctcgctgaca gactcgccga gcttcctgaa ctcgtcgttc agcattttct ctgtagattc
     1741 ggctctctct ttcagctttt tctcgaactc cgcgcccgtc tgtaaaagat tgctcataaa
     1801 atgctccttt cagcctgata ttcttcccgc cgttcgggtc tgcaatgctg atactgcttc
     1861 gcgtcaccct gaccacttca agccctgcct ctgtgagcgc ctgaatcaca tcctgacggc
     1921 ctcttatctc cccgacatga taaagagcgt ctatcccgcg tgtgacgctc tctgcaagcg
     1981 cctgtttcgt ttccggcagg ttatcaggga gtgtcagtat ccggcggttc tccggggcgt
     2041 tggggtcatg cagcccgtaa tggtgattca ccagcgtctg ccaggcatca attctcggcc
     2101 tgtctgcccg gtcgtagtac ggctggaggc gttttccggt ctgtagctcc atgttcggaa
     2161 tgacaaaatt cagctcaagc cgtcccttgt cctggtgctc cacccacagg atgctgtact
     2221 gattcttttc gagaccgggc atcagtacgc gctcaaagct cgccatcact ttttcacgtc
     2281 ctcccggcgg cagctccttc tccgcgaacg acagaacacc ggacgtgtat ttcttcgcaa
     2341 atggcgtggc atcgatgagt tcccggactt cttccggatt accctgaagc accgttgcgc
     2401 cttcgcggtt acgctccctc cccagcaggt aatcaaccgg accactgcca ccaccttttc
     2461 ccctggcatg aaatttaact atcatcccgc gccccctgtt ccctgacggc cagacgcagc
     2521 cggcgcagct catccccgat ggccatcagt gcggccacta cctgaacccg gtcaccggaa
     2581 gaccactgcc cgctgttcac cttacgggct gtctgattca ggttatttcc gatggcggcc
     2641 agctgacgca gtaacggcgg tgccagtgtc ggcagtttcc cggaacgggc aaccggctca
     2701 cccaggcaga cccgccgcat ccataccgcc agttgtttac cctcacagcg ttcaagtaac
     2761 cgggcatgtt catcatcagt aacccgtatc gtgagcatcc tctcgcgttt catcggtatc
     2821 attaccccat gaacagaaat cccccttaca cggaggcatc agtgactaaa caggaaaaaa
     2881 cagcccttaa catggcgcgc tttatcagaa gccagacatt aacgctgctg gaaaagctca
     2941 acgaactgga cgcggatgaa caggcagaca tctgtgaatc gcttcacgac cacgccgatg
     3001 agctttaccg cagctgcctc gcacgtttcg gggatgacgg tgaaaacctg ctgacaagcc
     3061 cgtcagggcg cgtcagcagg ttttagcggg tgtcggggcg cagccctgac ccagtcacgt
     3121 agcgatagcg gagtgtatac tggcttaact atgcggcatc agtgcggatt gtatgaaaag
     3181 cacaccatgc cgggtgtgaa atgccgcaca gatgcgtaag gagaaaatgc agcttccgac
     3241 gctcttccgc ttcctcgctc actgactcgc tgcgctcggt cgttcggctg cggcaagcgg
     3301 tgccggctca ctcaaaggcg gaaatacggt tatccacaga atcaggggat aaggccggaa
     3361 agaacatgtg agtaaaaagg caaagggcaa caaaaggccg cgccgctggc gtttttccat
     3421 aggctccgcc cccctgacga gcatcacaaa aatcgacgct caagtcagag gtggcgaaac
     3481 ccgacaggac tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct
     3541 gttccgaccc tgccgcttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg
     3601 ctttctcata gctcacgctg ttggtatctc ggcccggtgt aggtcgttcg ctccaagctg
     3661 ggctgtgtgc acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt
     3721 cttgagtcca acccggtaag acacgcctta acgccactgg cagcagccac tggtaaccgg
     3781 attagcagag cgagatttat ccagatgctt acagagttct tgaagtgatg gcctaactac
     3841 ggctacactg gaaggacagt atttggtatc tgtgctctgc tgaagccaga ttacctcggt
     3901 tagataatct gccaggatta gctaaccttc gaaaaaacca cctgccaggg tggttttttc
     3961 gtttacaggt ccaagattac gcgcagaaaa aaaggatctc aagagatcct tttagttttt
     4021 tagtcaaaaa gagcactaag cctatttcta taataattaa caacataagg gaaatcacta
     4081 tatttttcta tttgttttaa tattgactgt tgaatttcct ctttttcaga gtctgtgtaa
     4141 cttacattat tccactttct tgataattcc attgctgact gtagcatatc ttcaaaggtt
     4201 agcaccctat tattattttt atatttgaaa tttttatttt ctatcgtcgt tacaacgacc
     4261 acattagcct cgtataatat atttattgtc tcctcgctaa aagaatcatc tagtgtagct
     4321 agatacattt ctctaatacc tgttctatta acctcttcag gtacttcttg ccatcgctcc
     4381 ctcagcgttg ttttagcgga aatcaacatt gtatttcttt tgttagatgt gtactggact
     4441 acacctggca taacaagatc tacaagttta cctatttggt ttttttgaaa aaatgacttc
     4501 ccaatagccc cctgcacatc aacaggaatt cctgccccca tcattaatag ctcaagaata
     4561 gactcaaact cttttcctgc cctgctacgt ctggattgag tgttagacag tgccaaatca
     4621 tatatgtgtg tagggtattc catcgtaaaa tcacgaatgg catcataagg actcatatct
     4681 tttattcttt cttcatcaat aagatatgat aacattcttg ttgtgaattc tttttcaaat
     4741 ggttcaaatt ctttccaaca gttttttctc attgcaatta tatattcact tggattattc
     4801 aaaaaataat cactattttt ttgatcatac cctaaatcac aaaatgtttt ataaaccaaa
     4861 gcaaatggcg taataaaatg cgactttctc tctttagaaa ttagagtttt aaattcacca
     4921 ggactcaatc tttgcataaa aaataacctt ttatatctac ttgaaagttt tttcatgcac
     4981 gttcataatt ggaatcaaaa caggacaaat tgtcctaaaa ccaacactta attctggtag
     5041 acatgcatga ctgataatat cgcagcaaca atcaaaggaa aaagagaaag acttcatatg
     5101 actcaaaaag agtttgcaga cgcccttggt ctttcaaaat atggagacag aaccataaga
     5161 agatgggagc gcggggaaac aaaacctact ggggcggaac taaaagcagt tatggacttt
     5221 ccagacacac caccttaccc aaacaacgag aatggcagat atcgcatgat cgatttattt
     5281 gctggaatcg gtggaaccag acttggattt catcaaacta acgctgtaaa tgttgttttt
     5341 tccagcgaat gggataagtt tgctcaaaag acatatcatg caaattatgg tgatttccct
     5401 gatggggaca taacaaaaat cgatgaaaaa gatattcctg atcatgaaat tcttgtcggt
     5461 gggtttcctt gcgtagcatt ctctcaagca gggctcaaaa aaggatttaa tga
//
