LOCUS       CP057300                5962 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB30-C10 plasmid pRHB30-C10_8, complete
            sequence.
ACCESSION   CP057300
VERSION     CP057300.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148294
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5962)
  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 5962)
  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                     :: RH02 T3-C10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 132.442474658053x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:43:45
            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)                     :: 5,692
            CDSs (total)                      :: 5,565
            Genes (coding)                    :: 5,192
            CDSs (with protein)               :: 5,192
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 373
            CDSs (without protein)            :: 373
            Pseudo Genes (ambiguous residues) :: 0 of 373
            Pseudo Genes (frameshifted)       :: 134 of 373
            Pseudo Genes (incomplete)         :: 212 of 373
            Pseudo Genes (internal stop)      :: 59 of 373
            Pseudo Genes (multiple problems)  :: 31 of 373
            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..5962
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB30-C10"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB30-C10_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(249..440)
                     /locus_tag="HVY77_28380"
     CDS             complement(249..440)
                     /locus_tag="HVY77_28380"
                     /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="QMF70716.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            505..828
                     /locus_tag="HVY77_28385"
     CDS             505..828
                     /locus_tag="HVY77_28385"
                     /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="QMF70722.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREQRVQ
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            986..1528
                     /locus_tag="HVY77_28390"
                     /pseudo=""
     CDS             986..1528
                     /locus_tag="HVY77_28390"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus and 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            1506..2024
                     /locus_tag="HVY77_28395"
     CDS             1506..2024
                     /locus_tag="HVY77_28395"
                     /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="QMF70717.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            2031..2264
                     /gene="mbeD"
                     /locus_tag="HVY77_28400"
     CDS             2031..2264
                     /gene="mbeD"
                     /locus_tag="HVY77_28400"
                     /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="QMF70718.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            2989..3798
                     /locus_tag="HVY77_28405"
     CDS             2989..3798
                     /locus_tag="HVY77_28405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000479291.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II site-specific deoxyribonuclease"
                     /protein_id="QMF70721.1"
                     /translation="MFLLKNKAGYGYFGSFNGVNTQEYHSFTFDGEYSRPVRDDLFITD
                     YDFFVSGFREFNESLKNIGSRWTSFDSRRANKIIYTSVMSVACCFDLWKSGSRKTPGTF
                     FEIFMAAVLKLMIPDELFSKHIPLIDQLESDDESIDPSSVSTDIVIKSKCKNASVVIPL
                     KITTRERIVQPFAQQRILDSYFGNGVYFSFLACISETQQDKKKKKVNHICVPGTIKLYQ
                     KYLSSLSGMYYCDIPERYLERDLTDIIPVKSMGDFLFDIYSFFRLQD"
                     /name="type II site-specific deoxyribonuclease"
     gene            complement(3782..4909)
                     /locus_tag="HVY77_28410"
     CDS             complement(3782..4909)
                     /locus_tag="HVY77_28410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283633.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="QMF70719.1"
                     /translation="MPHRNTSNKLTCIESFCGAGGMSLGLKQAGFDVRLAFDINENAVE
                     TYNKNIGNHCEKLDASIVSGKFLLEKAGIKTRLDLFSGGPPCQGFSKQKRGAHLLDDDR
                     NKLVLEYSRLVNELKPRAFLFENVEIFGQKRGKDLINEIKNKLIDYNIYTYFICSSDFG
                     VAQKRGRFLMIGIDKSEGKVVPKLLKSDKTLTIRDVIGQLPPPPEDYKEHPDIPNHIKC
                     KIKKINEERFSYVPPGGGWKDIPFNLRLKCHQKVDTASGGWPDVYGRLEWDKQCPTITA
                     GFDSFTRGRYGHPSQNRAITLREGAMLQGFPVNYRFYGNRDAIRLQIGNAVPPPVSYAA
                     GTAIINCLNTMQDKNHFNFQNPMELDKDGQFSLAI"
                     /name="DNA cytosine methyltransferase"
     gene            5000..5266
                     /locus_tag="HVY77_28415"
     CDS             5000..5266
                     /locus_tag="HVY77_28415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008944190.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="QMF70720.1"
                     /translation="MTPEICKASRALVNLTQKELALMAGIATPTIADFERGARKPHGNN
                     LRSIIIAFENNGLDFVEEDGEIIGIFIRRKNVRTEESIDLSGH"
                     /name="helix-turn-helix transcriptional regulator"
     Typing          87..171
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="100.0"
                     /evalue="3.06e-32"
     Typing          complement(5481..5962)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.65"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          819..2368
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggaagcgga agagcgcctg atgcggcatt ttctccttac gcatctgtgc ggtatttcac
       61 accgtatatg gtgctctttt cttataatcc gcactgattc cacatagtta agccagtata
      121 cactccgcta tcgctacgtg actggttcag ggcttcgccc cgaaaccccc tgacgcgccc
      181 tgacgggctt gtctgctccc ggcatccgct cacagacaag ctgtgacagt ctccgggagc
      241 tgtatgtgtc agaggttttc accgtcatcc ccgaagcgtg cgaggcagct gcggtaaagc
      301 tcgtcggcgt ggtcgtgaag tgattcacaa atatcggcct gttcatctgc gtccagttcg
      361 ttgagcttct ccagcagcgt taatgtctgg cttcttataa agcgggccat gttaagggcg
      421 gttttttcct gtttggtcac tgatgcctcc gtgtaagggg gatttctgtt catgggggta
      481 atgataccga tgaaacgcga gaggatgctc acaatacggg ttactgatga tgaacatgcc
      541 cggttacttg aacgctgtga gggtaaacag ctggcggtat ggatgcggcg ggtctgtctg
      601 ggtgagccgg ttgcccgctc cgggaggctg ccgacactgg caccgccgtt actgcgtcag
      661 ctggccgcca tcgggaataa cctgaatcag actgcgagga aggtgaacag cgggcagtgg
      721 tcttccggtg accgggttca ggtggtggcc gcactgatgg ccatcgagag agagttgcgc
      781 agcttacggc aggtggtcag ggaacagaga gtgcaggatg atagttaagt ttcatgccag
      841 gggaaaaggc ggtggcagtg gtccggttga ttacctgctg ggaagggagc gtaaccggga
      901 aggggcaacg gtgcttcagg gtaatccgga agaagtccgg gaactcatcg atgccacgcc
      961 atttgcgaag aaatacacgt caggtgttct gtcgttcgcg gagaaggagc tgccgccggg
     1021 aggacgtgaa aaggtgatgg cgagctttga gcgtgtactg atgcccggtc tcgaaaaaaa
     1081 tcagtacagc atcctgtggg tggagcacca ggacaaggga cggcttgagc tgaattttgt
     1141 cattccgaac atggagctac agagcggaaa acgcctccag ccgtactacg accgggcaga
     1201 caggccgaga attgatgcct ggcagacgct ggttaatcac cattacgggc tgcatgaccc
     1261 caacgccccg gagaaccgcc ggatactgac tctccctgat aacctgccgg aaacgaaaca
     1321 ggcgcttgca gagagcgtca cacgcgggat agacgctctt tatcatgtcg gggagataaa
     1381 aggccgtcag gatgtgattc aggcgctcac agaggcaggg cttgaagtgg tcagggtgac
     1441 gcgaagcagt atcagcattg cagacccgaa cggcgggaag aatatcagac tgaaaggagc
     1501 attctatgag caatctttta cagacgggcg cggagttcga gaaaaagctg aaagagagag
     1561 ccgaatctac agagacaatg ctgaacgacg agttcagcaa gctcgaaaaa tctgtaagca
     1621 aggctgtgac atcaaacgag acgaaaatca aagacgctat agccctgttc acagcttcga
     1681 cagaggaatc actgaaaaaa caccgggaag gggtgaaaga ggcgatgatg cagcacagga
     1741 aggacgtgtt aaagctggca gggaatacgg gcatgatgtt actggggatg gtccttttcc
     1801 tgtttaccgt gagtggcggg acgctctggt atcttggcgg gcggatacag gcgaacctgg
     1861 aagaaatcag gatacaggaa gaaacattgc agaaactgaa cgcgaagaca tggggcgtgg
     1921 agtttgtgca ggacgggaga aggaaatttc tggtccttcc gtacgggaaa tcggcaacgg
     1981 tgattcccta tcaggagaag gactgggtac aactgacgga gtgacacaga gtgacggagc
     2041 tggaaagaca tttgctgaac gccttagagc aactgcaaca ggactatatg cagcggctga
     2101 gcgaatggga gagcgccttc gtggaattgc agaaaatgtt ttcgcttacg caacgggaca
     2161 acgcgatgct gaacgagcag gtcatgcagt tgagtcagca ggtgcagcac ttgagcgagc
     2221 ggacagaacg cttgagccag ttatacagcg agaacaggag ataagggacg aacggctgat
     2281 acaggagcgc gaacatgcgt tatccctgga gcgtgagcgc cagccggaaa tacaggaatg
     2341 gacacaggat ggcccttcgc ttggatggta atcagagaca ggctaaaatg ttgtcagcgc
     2401 gtttccggtg cattttttgg gataatggtt ggttcggggg caccgggaac gcgcttcagt
     2461 cagaccttgc tgaaaacaca ggaacgcgtt aaaacgcata cgggcgcgat tctggtgtgt
     2521 cttttgttgc tgtgttttgc ctctattgcc agatcgcgct cattcccctg aacttctgtt
     2581 ttcccgctcc ggtccccgtc ttcttcgctt ccgaaagcat gaaaaaaatc cgtttcagct
     2641 gtctctggct ggcaattcct gcgtgattca catggctgca tagctatgca tgtggttaaa
     2701 atttaccggg tgcgatcgcg gcagtttttc gggtggtttg ttgccatttt tacctgtctg
     2761 ctgccgtgat cgcgccgaac gcgtttcagc ggtgcgtaca atgagacgtt atggtaaata
     2821 aaaatcgctc tatttatatg aaaaaatatt cactaataaa caaaattaac atagaaaagg
     2881 tatgagaaaa atatggatat cttgaaagaa aaaattgacg ttgcttcacg gctttataat
     2941 ttaaacgtga accatatatc agaaacattg caggtaatag aatatgcaat gtttttatta
     3001 aaaaacaaag cagggtatgg ttactttggt tcatttaatg gggtgaatac acaggaatat
     3061 cattcattta catttgatgg tgaatattcc aggccagtaa gagatgatct ctttattact
     3121 gattatgatt tctttgtatc agggtttaga gagttcaatg aaagtttgaa gaatattggt
     3181 agtagatgga catcatttga ttctaggaga gctaataaaa taatttatac atctgtaatg
     3241 tctgttgcat gctgttttga tctttggaaa agtggtagca gaaagactcc gggaacattt
     3301 tttgaaattt tcatggcagc agtattaaag ttgatgattc ctgatgagct tttctcaaag
     3361 cacataccac taatagatca gcttgaatca gatgatgagt caattgatcc atcaagcgtg
     3421 tctactgata ttgttataaa atctaaatgc aaaaacgcta gtgtagttat accattaaag
     3481 ataactacaa gagagagaat tgttcaacca tttgctcagc agagaatatt ggactcatac
     3541 tttggaaatg gtgtttattt ttctttctta gcgtgtatta gcgagacgca acaagacaag
     3601 aagaaaaaaa aggttaatca tatatgtgtt ccgggaacaa taaaattata tcaaaaatat
     3661 ctctctagtc tctctggtat gtattactgt gatattccag agcgttactt ggaaagagat
     3721 ttgaccgaca taataccggt caaatctatg ggtgatttct tatttgatat ttactctttc
     3781 tttagattgc aagactaaat tgtccatcct tatccaactc cattgggttt tggaagttaa
     3841 agtgattttt atcttgcatt gtgtttaaac aattaattat tgctgttcct gctgcgtagg
     3901 atactggcgg tggaacagca tttccaattt gtagcctaat agcatcacgg ttaccataga
     3961 atctatagtt tacagggaat ccttgtagca ttgcgccctc ccttaatgtt attgctctat
     4021 tttgtgatgg gtgtccatac ctacccctag tgaaactatc gaagcctgcc gttatggttg
     4081 ggcattgttt gtcccattca agcctcccat aaacgtcagg ccatcctccc gatgctgtat
     4141 caaccttttg gtggcatttt aaccttaagt tgaatggtat atctttccat cctccaccag
     4201 gaggaacgta tgaaaacctt tcttcattaa tcttttttat tttacatttt atatgatttg
     4261 gtatgtctgg atgctcttta taatcctctg gtggaggcgg taactgacca attacatctc
     4321 ttattgtaag ggttttatct gattttaata gtttggggac gactttacct tctgacttgt
     4381 ctattccaat cattaggaaa cggcctcttt tttgcgcaac tccaaaatca gatgagcaga
     4441 tgaaatatgt gtatatattg taatcaatca acttgttctt aatctcatta attagatctt
     4501 tgcctctttt ttgaccaaaa atttccacat tttcaaataa aaaagctcta ggttttaatt
     4561 cattaactag cctagaatat tcaagaacta acttgtttct atcgtcatca agaagatggg
     4621 cgcctctttt ttgttttgaa aatccttgac aaggcggtcc accactaaaa agatctagtc
     4681 tcgtttttat gcctgctttt tccaaaagaa acttcccgct aacaatagaa gcatctaatt
     4741 tttcgcaatg attaccaatg tttttgttgt aggtttctac agcattttca ttaatatcaa
     4801 atgccaacct aacatcaaaa cctgcttgtt ttaatccgag ggacataccc ccggcaccac
     4861 aaaaactttc gatgcacgtt agtttattag atgtgtttct atgtggcatg atgtctcact
     4921 tacaaggggc cgtttacatg tatgatagcg ttaattatac ctagaggtca atgttttgat
     4981 acaaaatcat attaaaaata tgactcctga aatttgtaag gcctctaggg ccttagttaa
     5041 cttgactcag aaagagctag ctcttatggc gggaatagcg acaccaacca ttgctgattt
     5101 tgagcgcggc gcaagaaaac ctcatggaaa caacttgaga tctatcatta ttgcttttga
     5161 aaacaatgga ttggattttg ttgaggagga tggtgagata atcggaatct ttatcagaag
     5221 aaagaatgtc agaaccgagg aatctattga tctgtcaggt cattgagggc atcatcttat
     5281 cgaaaagaaa aaaccgcctt gcagggcggt tttctcaaag gttcagtaac cggcaagttt
     5341 ctgaaccagg gtaactggct tggaggagcg cagtcaccaa aacttgttct ttcagtttag
     5401 ccttaactgg cgcataactt caagactaac tcctctaaat cagttaccag tggctgctgc
     5461 caatggtgtt ttgcatgtct ttccgggttg gactcaagat gatagttacc ggataaggcg
     5521 cagcggtcgg gctgaacggg gggttcgtgc acacagccca gcttggagcg aacgacctac
     5581 actgaaccga gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga
     5641 aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac gagggagcca
     5701 ccagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag
     5761 cgtcgatttc tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc caacggcgcg
     5821 gccttttgtt ggcctttgcc tttttgctca catgttcttt ccggccttat cccctgattc
     5881 tgtggataac cgtattacgc ctttgagtgc gctgataccg ctcgccgcag ccgaacgacc
     5941 gagcgtagcg agtcagtgag cg
//
