LOCUS       CP057301                5775 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB30-C10 plasmid pRHB30-C10_9, complete
            sequence.
ACCESSION   CP057301
VERSION     CP057301.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148294
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5775)
  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 5775)
  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..5775
                     /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_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(402..566)
                     /locus_tag="HVY77_28420"
     CDS             complement(402..566)
                     /locus_tag="HVY77_28420"
                     /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="QMF70723.1"
                     /translation="MMDKDTTTLKRTLAHNRAFSDNINRSGIAWCYNTEIVLAACEAIE
                     AELQRRGCL"
                     /name="hypothetical protein"
     gene            complement(1237..1470)
                     /gene="mbeD"
                     /locus_tag="HVY77_28425"
     CDS             complement(1237..1470)
                     /gene="mbeD"
                     /locus_tag="HVY77_28425"
                     /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="QMF70724.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(1477..1995)
                     /locus_tag="HVY77_28430"
     CDS             complement(1477..1995)
                     /locus_tag="HVY77_28430"
                     /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="QMF70725.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            complement(1973..2695)
                     /locus_tag="HVY77_28435"
                     /pseudo=""
     CDS             complement(1973..2695)
                     /locus_tag="HVY77_28435"
                     /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(2673..2996)
                     /locus_tag="HVY77_28440"
     CDS             complement(2673..2996)
                     /locus_tag="HVY77_28440"
                     /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="QMF70729.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3061..3252
                     /locus_tag="HVY77_28445"
     CDS             3061..3252
                     /locus_tag="HVY77_28445"
                     /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="QMF70726.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4224..4526)
                     /locus_tag="HVY77_28450"
     CDS             complement(4224..4526)
                     /locus_tag="HVY77_28450"
                     /inference="COORDINATES: protein motif:HMM:NF024139.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="QMF70727.1"
                     /translation="MKLLDSNEVCELLGISKSTLYRWCGVSEDFSGLGLSSGLPQANAT
                     QNSLGRENRLVRRELQQNALGVEETPSDFPRPFKIGRSFKWKDAEIMAWLETRRV"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(4799..5293)
                     /locus_tag="HVY77_28455"
     CDS             complement(4799..5293)
                     /locus_tag="HVY77_28455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000929317.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMF70728.1"
                     /translation="MAGTVWRDIRTGETVFPMGHLHPQRCCVDVNGTSVDIEISFGFHV
                     FTDEKQTGMLMKFKEEQRFFCRERYEGSKTIVHRILTAIENGEYITAFISKGQGQRYYH
                     LSHHDDFILMEIRKPQDRNNSLRIHVVTAYTLDEWGTVNKGRNLRFRYVLEQRLQGKKI
                     V"
                     /name="hypothetical protein"
     gene            complement(5294..5719)
                     /locus_tag="HVY77_28460"
     CDS             complement(5294..5719)
                     /locus_tag="HVY77_28460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014640499.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMF70730.1"
                     /translation="MDTWHRLENDGYSTVPRYLPLIGDLMDGLSKGSPLSTTYLALWFR
                     VSDEGLIEIRDKAALAFESGFASERGVTTWAGRMKKLKELGFISCREGSTGEFHYVLIV
                     HPLVAVKKLLDEGIIPKGKTYNILSERVIEVGASWEG"
                     /name="hypothetical protein"
     Typing          complement(3345..3428)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.07e-36"
     Typing          complement(3861..4091)
                     /name="rep_cluster_2392"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.81"
                     /coverage="91.0"
                     /evalue="1.42e-85"
     Typing          complement(1134..2683)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcttacctgc ttttcttgct cttgcggaca tagtcgtctc ccgtttgtct atggacacta
       61 atttattgaa aaaaccaata aaatcaaata gttattcatt gctggcagct tgttctcatc
      121 tgaaaaaata gagttaaaaa caagctaaat cgcaataaac attacattta aaaacataaa
      181 aagtaatata tattacaatg aagttgttta attatatgat taataatgat ttataagagg
      241 aaggcggtgc tcattgtgct cgttgtgctc gatggttctc cctgtgctcc ttgtgctcca
      301 tggggttgta gggggcaagc cagggcggat agagagaaaa ataatttagc ggtagcgcgt
      361 ctcagagact aaaaaacccg ctgatgcggg ttttcttatt gttacaaaca tcctcgccgt
      421 tgtagttcgg cttcaatcgc ctcacaagca gcgagtacaa tctcagtgtt atagcaccag
      481 gctatgccac tgcggttaat attatcgcta aaggctcgat tatgagccaa agtgcgtttt
      541 agggtggtgg tatctttgtc catcatcagg atctccattc aggttaacga gcttcatgct
      601 cccagatatt tactcttgcc gttcctgaac aggctaaaat agcgaaaaaa agcctatttt
      661 cgcttcatcc cagagcacca atatttacca taacatccgt tgcccgcacc gcagaaacgc
      721 gttcggtgcg atcacggcag cagacaggta aaaatggcaa caaaccaccc gaaaaactgc
      781 cgcgatcgca cccggtaaat tttaaccaca tgcatagcta tgcagccatg tgaatcacgc
      841 aggaattgcc agccagagac agctgaaacg gatttttttc atgctttcgg aagcgaagaa
      901 gacggggacc ggagcgggaa aacagaagtt caggggaatg agcgcgatct ggcaatagag
      961 gcaaaacaca gcaacaaaag acacaccaga atcgcgcccg tatgcgtttt aacgcgttcc
     1021 tgtgttttca gcaaggtctg actgaagcgc gttcccggtg cccccgaacc aaccattatc
     1081 ccaaaaaatg caccggaaac gcgctgacaa cattttagcc tgtctctgat taccatccaa
     1141 gcgaagggcc atcctgtgtc cattcctgta tttccggctg gcgctcacgc tccagggata
     1201 acgcatgttc gcgctcctgt atcagccgtt cgtcccttat ctcctgttct cgctgtataa
     1261 ctggctcaag cgttctgtcc gctcgctcaa gtgctgcacc tgctgactca actgcatgac
     1321 ctgctcgttc agcatcgcgt tgtcccgttg cgtaagcgaa aacattttct gcaattccac
     1381 gaaggcgctc tcccattcgc tcagccgctg catatagtcc tgttgcagtt gctctaaggc
     1441 gttcagcaaa tgtctttcca gctccgtcac tctgtgtcac tccgtcagtt gtacccagtc
     1501 cttctcctga tagggaatca ccgttgccga tttcccgtac ggaaggacca gaaatttcct
     1561 tctcccgtcc tgcacaaact ccacgcccca tgtcttcgcg ttcagtttct gcaatgtttc
     1621 ttcctgtatc ctgatttctt ccaggttcgc ctgtatccgc ccgccaagat accagagcgt
     1681 cccgccactc acggtaaaca ggaaaaggac catccccagt aacatcatgc ccgtattccc
     1741 tgccagcttt aacacgtcct tcctgtgctg catcatcgcc tctttcaccc cttcccggtg
     1801 ttttttcagt gattcctctg tcgaagctgt gaacagggct atagcgtctt tgattttcgt
     1861 ctcgtttgat gtcacagcct tgcttacaga tttttcgagc ttgctgaact cgtcgttcag
     1921 cattgtctct gtagattcgg ctctctcttt cagctttttc tcgaactccg cgcccgtctg
     1981 taaaagattg ctcatagaat gctcctttca gtctgatatt cttcccgccg ttcgggtctg
     2041 caatgctgat actgcttcgc gtcaccctga ccacttcaag ccctgcctct gtgagcgcct
     2101 gaatcacatc ctgacggcct tttatctccc cgacatgata aagagcgtct atcccgcgtg
     2161 tgacgctctc tgcaagcgcc tgtttcgttt ccggcaggtt atcagggaga gtcagtatcc
     2221 ggcggttctc cggggcgttg gggtcatgca gcccgtaatg gtgattaacc agcgtctgcc
     2281 aggcatcaat tctcggcctg tctgcccggt cgtagtacgg ctggaggcgt tttccgctct
     2341 gtagctccat gttcggaatg acaaaattca gctcaagccg tcccttgtcc tggtgctcca
     2401 cccacaggat gctgtactga tttttttcga gaccgggcat cagtacacgc tcaaagctcg
     2461 ccatcacctt ttcacgtcct cccggcggca gctccttctc cgcgaacgac agaacacctg
     2521 acgtgtattt cttcgcaaat ggcgtggcat cgatgagttc ccggacttct tccggattac
     2581 cctgaagcac cgttgcccct tcccggttac gctcccttcc cagcaggtaa tcaaccggac
     2641 cactgccacc gccttttccc ctggcatgaa acttaactat catcccgcgc tccatgttcc
     2701 ctgacgacct gccgtaagct gcgcaactct ctctcgatgg ccatcagtgc ggccaccacc
     2761 tgaacccggt caccggaaga ccactgcccg ctgttcacct tcctcgccgt ctgattcaga
     2821 ttattcccga tggcagccag ctggcgcagt aacggcggtg ccagtgtcgg cagcttcccg
     2881 gaacgggcaa ccggctcacc cagacagacc cgccgcatcc ataccgccag ctgtttaccc
     2941 tcacagcgtt ccagtaaccg tgcatgttca tcatcagtaa cccgtatcgt gagcatcctc
     3001 tcgcgtttca tcggtatcat taccccatga acagaaatcc ccccttacac ggaggcatca
     3061 gtgactaaac aggaaaaaac cgcccttaac atggcccgct ttatcagaag ccagacatta
     3121 acgctgctgg aaaagctcaa cgaactggac gcggatgaac aggcagacat ctgtgaatcg
     3181 cttcacgacc acgccgatga gctttaccgc agctgcctcg cacgcttcgg ggatgacggt
     3241 gaaaacctct gacacataca gctcccggag acggtcacag cttgtctgtg agcggatgcc
     3301 gggagcagac aagcccgtca gggcgcgtca ggccgttgac cttgcgggtg tcggggcgca
     3361 gccatgaccc agtcacgtag cgatagcgga gtgtatactg gcttaaccat gcggcatcag
     3421 tgcggattgt atgaaaagtg cgccatgccg ggtgtgaaat gccgcacaga tgtgtaagga
     3481 gaaaatgcaa cttccgacgc tcttccgctt cctcgctcac tgactcgcta cgctcggtcg
     3541 ttcggctgcg gcgagcggta tcagctcact caaagacggt aatgcggtta tccacagaat
     3601 caggggataa caccaaaaga aacatgtgag caaaaaacaa gaacccagag aaggccacgc
     3661 cgctggcgtt tttccatagg ctccgccccc ctgacgagca tcacaaaaat cgacgctcaa
     3721 gtcagaggtg gcgaaacccg acaggactta aagataccag gcgtttcccc ctggcggctc
     3781 cctcttgcgc tctcctgttc ccgtcctgcg gcatccgtgt tgtggtggaa gctttaccta
     3841 aatcaccacg tcccgttccg tttagacagt tcgctccaag ctgggctgta tgcaagaacc
     3901 ccccgttcag cccgactacc acgttgtccc ggtaactatc atcttgagtc caacccggaa
     3961 cagacacgaa aaatcgccag tggcggtagc cattggtaaa caggatgtgc gagagatgta
     4021 ttcaaagttc ttgaagtggt ggccttagtg aggctacact gaaaggacag atttggtgac
     4081 acgtctcgca caaggctgtt accacggtta ttcaatctgc caggattaaa taaccttcga
     4141 aaaaccacct gccatggtgg ttttttcgtt tacaggacaa aagactacga cgagatccaa
     4201 atgatctcaa gaagatctat caatcaaacg cgtcgcgttt caagccaagc cataatttcg
     4261 gcgtctttcc atttaaacga acgaccgatc ttgaaaggac gagggaagtc gcttggcgtc
     4321 tcttcgacac cgagagcgtt ttgctgtaat tccctcctaa cgagcctatt ttccctgcct
     4381 aaagagttct gagtagcgtt agcctgagga agaccgctac ttagacccaa gccagaaaaa
     4441 tcctcagaca ccccgcacca acgatacaaa gtggacttac tgatgcctaa gagctcacac
     4501 acttcattac tatcaagcaa cttcatatga acacctataa aaaacaatga aaacctataa
     4561 acacttataa ccacaaagag ggtaaatgac aacctataaa caccaatgaa caccaaaaag
     4621 tacgctagtt tgacaacgaa catgtggaat aggatactaa tgttgtcagc acaaaccgga
     4681 acctcgagag aggggtgctg atgccggggg tcacaccctc ccagcctgtg agcgggataa
     4741 cgaaaggcca gaccgaaatt ctgcaaaaaa caaaggcgcc ttaggcgctt tttgtttttt
     4801 acacaatctt ctttccctgc agtcgctgtt ccagcacata tctaaaccgc aggttacgtc
     4861 ctttatttac agtcccccat tcatcaagcg tgtaagctgt aacaacatga atacgcaaag
     4921 aattatttct atcttgaggc tttcttattt ccatcaaaat gaagtcatca tgatggctaa
     4981 gatggtaata ccgctgcccc tgcccctttg aaataaatgc tgtaatgtat tcaccgtttt
     5041 ctatcgctgt aagtattctg tgaacgatag ttttgctgcc ctcatagcgt tccctacaaa
     5101 aaaacctctg ttcctcctta aatttcatca gcattccggt ttgtttttca tcagtaaaaa
     5161 catgaaaacc aaaactaatt tctatatcta cagaagtacc gtttacatca acacagcacc
     5221 tctgagggtg caggtgcccc ataggaaaaa cagtctctcc cgttcttatg tcacgccata
     5281 ctgtgcccgc catttacccc tcccaagagg ctcccacctc aattacacgc tccgacaaaa
     5341 tgttataagt ctttccttta gggataatcc cttcatcaag cagctttttg actgcaacta
     5401 atgggtgaac aattaacacg taatgaaatt caccggtgct gccttcacga caggatatga
     5461 accccagttc ttttagcttt ttcattctcc ctgcccatgt agttacgcct ctttcactag
     5521 cgaaccctga ttcaaaagcc agtgctgctt tatctcttat ttcaatcaac ccctcatcag
     5581 aaaccctgaa ccataaagcc aagtaggttg ttgataatgg tgatcctttt gacagaccat
     5641 ccatgagatc gcctatcaaa ggcaaataac gtggaactgt tgagtaccca tcattttcaa
     5701 gtcgatgcca agtatcgatt tcgtcgtctt cccacaattt ttcaatcaaa tcctgacgtc
     5761 gttctgactg atttc
//
