LOCUS       CP057935                6061 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB09-C20 plasmid pRHB09-C20_4, complete
            sequence.
ACCESSION   CP057935
VERSION     CP057935.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148050
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6061)
  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 6061)
  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-C20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 71.3022014516544x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:39:31
            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)                     :: 5,022
            CDSs (total)                      :: 4,903
            Genes (coding)                    :: 4,774
            CDSs (with protein)               :: 4,774
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 129
            CDSs (without protein)            :: 129
            Pseudo Genes (ambiguous residues) :: 0 of 129
            Pseudo Genes (frameshifted)       :: 53 of 129
            Pseudo Genes (incomplete)         :: 70 of 129
            Pseudo Genes (internal stop)      :: 41 of 129
            Pseudo Genes (multiple problems)  :: 33 of 129
            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..6061
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB09-C20"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB09-C20_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(29..142)
                     /locus_tag="HVW33_25075"
     CDS             complement(29..142)
                     /locus_tag="HVW33_25075"
                     /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="replication initiation protein"
                     /protein_id="QMO81345.1"
                     /translation="MHEPPVQSDRCAFSGNYQLESNPERHDKTPMAAATGN"
                     /name="replication initiation protein"
     gene            complement(794..985)
                     /locus_tag="HVW33_25080"
     CDS             complement(794..985)
                     /locus_tag="HVW33_25080"
                     /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="QMO81346.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1049..1372
                     /locus_tag="HVW33_25085"
     CDS             1049..1372
                     /locus_tag="HVW33_25085"
                     /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="QMO81351.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGEELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1530..2072
                     /locus_tag="HVW33_25090"
                     /pseudo=""
     CDS             1530..2072
                     /locus_tag="HVW33_25090"
                     /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            2050..2568
                     /locus_tag="HVW33_25095"
     CDS             2050..2568
                     /locus_tag="HVW33_25095"
                     /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="QMO81347.1"
                     /translation="MSNLLRTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDMLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEDIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPCGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            2575..2808
                     /gene="mbeD"
                     /locus_tag="HVW33_25100"
     CDS             2575..2808
                     /gene="mbeD"
                     /locus_tag="HVW33_25100"
                     /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="QMO81348.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="mbeD"
     gene            4115..5413
                     /locus_tag="HVW33_25105"
     CDS             4115..5413
                     /locus_tag="HVW33_25105"
                     /inference="COORDINATES: protein motif:HMM:NF024700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="QMO81349.1"
                     /translation="MMVNFSLSNAFSFMEAQNMSMLAVSSSKDDINLANVVSVRDERIL
                     KSALIFGANASGKSNLMKTISLMKDIVLHSVQAIESSITKNVVPFLLDEAGPTKPSEME
                     MTFIADGIKYRYGLSLFQGKIKEEWLYYTPKTRETILFERDGQLIEINKAAFSESNLFI
                     KDGVIQKTREDVPFVSVVAGFNGEHSKRVVNWFSNVVFLSGSNEGMFTGITMKLINESE
                     DFKAWLKKILPAFQINDIYLDEVAPEFPFGNIKTDDDNLKNLFSSIQNFAKNQKVFSLR
                     VVKKTANGEISVPIDFESEGTKKIVYLLGPIYNAMINNNLLLVDEFDSKFHTLLSKFLF
                     RIFHAQSEGFSQVIAAVQDVNLMNTDCFRRDQIWFVDKDVKSGSSHLYSLVEYKEKQRS
                     LKPSYGNDYLSGAFDAIPLFDNLNEFEKLMPEG"
                     /name="ATP-binding protein"
     gene            5418..5855
                     /locus_tag="HVW33_25110"
     CDS             5418..5855
                     /locus_tag="HVW33_25110"
                     /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="QMO81350.1"
                     /translation="MPKRGKSIRSSSRNEETKPSKSTAKTTDRFISISFKHFHNVDDVG
                     QSINTWKDDGSLPDLIEKLVYLTANGITKVISDGVFTNYTRFPESAVNDFRCPDEISSD
                     EDWGVIKNIGGQKRRVAGFLRDNVFYIVFFDRDHRFWKSQK"
                     /name="hypothetical protein"
     Typing          622..709
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.876"
                     /coverage="100.0"
                     /evalue="3.19e-37"
     Typing          complement(71..608)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.993"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          1363..2912
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.42"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcataacttc aagactaact cctctaaatc agttaccagt ggctgctgcc attggcgttt
       61 tgtcgtgtct ttccgggttg gactcaagtt gatagttacc ggaaaaggcg cagcggtcgg
      121 actgaacggg gggttcgtgc atacagtcca gcttggagcg aactgcctac ccggaactga
      181 gtgtcaggcg tggaatgaga caaacgcggc cataacagcg gagtgacacc ggtaaaccga
      241 atggcaggaa caggagagcg cacgagggag tcaccagggg gaaacgcctg gtatctttaa
      301 gtcctgtcgg gtttcgccac ctctgacttg agcgtcggtt tttgtgatgc tcgtcagggg
      361 ggcggagcct atggaaaaac gccagcggcg cggccttcct cctgttcctg gtcttttgct
      421 cacatgttct ttccggcctt atcccctgat tctgtggata actgtgttac cgtttttgtg
      481 tgagtcagta ccgctcgccg cagtcgaacg accgagcgta gcgagtcagt gagcgaggaa
      541 gcggaaaagc gcctggacat gcattttctc cttacgcatc tgtgcggcat ttcacacccg
      601 gcatggcgta cttttcatac aatccgcact gatgccgcat ggttaagcca gtatacactc
      661 cgctatcgct acgtgactgg gtcagagctg cgccccgaca cccgctaaaa cctgctgacg
      721 cgccctgacg ggcttgtctg ctcccggcat ccgctcacag acaagctgtg accgtctccg
      781 ggagctgcat gtgtcagagg ttttcaccgt catccccgaa acgtgcgagg cagctgcggt
      841 aaagctcatc ggcgtggtcg tgaagcgatt cacagatgtc tgcctgttca tccgcgtcca
      901 gttcgttgag cttttccagc agcgttaatg tctggcttct gataaagcgc gccatgttaa
      961 gggcggtttt ttcctgttta gtcactgatg cctccgtgta agggggattt ctgttcatgg
     1021 ggtaatgata ccgatgaaac gcgagaggat gctcacgata cgggttactg atgatgaaca
     1081 tgccaggtta cttgaacgct gtgagggtaa acaactggca gtatggatgc ggcgggtctg
     1141 cctgggtgag ccggttgccc gttccgggaa gctgccgaca ctggcaccgc cgttactgcg
     1201 tcagctggcc gccatcggga ataacctgaa tcagacagcg aggaaggtga acagcgggca
     1261 gtggtcttcc ggtgaccggg ttcaggtggt ggccgcactg atggccatcg gggaggagct
     1321 gcgtcggctg cgtctggccg tcagggaaca gggggcgcgg gatgatagtt aagtttcatg
     1381 ccaggggaaa aggtggtggc agtggtccgg ttgattacct gctgggaagg gagcgtaacc
     1441 gggaaggggc aacggtgctt cagggtaatc cggaagaagt ccgggaactc atcgatgcca
     1501 cgccatttgc gaagaaatac acgtcaggtg ttctgtcgtt cgcggagaag gagctgccgc
     1561 cgggagggcg tgaaaaagtg atggcgagct ttgagcgtgt actgatgccc ggtctcgaaa
     1621 aaaatcagta cagcatcctg tgggtggagc accaggacaa gggacggctt gagctgaatt
     1681 ttgtcattcc gaatatggag ctacagaccg gaaaacgcct ccagccgtac tacgaccggg
     1741 cagacaggcc gagaattgat gcctggcaga cgctggtgaa tcaccattat gggctgcatg
     1801 accccaacgc cccggagaac cgccggacgc tgactctctc tgataacctg ccggaaacga
     1861 aacaggcgct tgctgagagc gttacacggg ggcttgatgt gctttaccgt gccggagaga
     1921 taaaagaccg tcaggatgtg attcaggcac tcacagatgt gggagttgag gttgtcaggg
     1981 tgacgcgaag cagtatcagc attgcagacc cgaacggcgg gaggaatatc agactgaaag
     2041 gagcgtttta tgagcaatct tttacggacg ggcgcggagt tcgagaaaaa gctgaaagag
     2101 agagccgaat ctacagagaa aatgctgaac aacgagttca ggaggctcgg cgaatctgta
     2161 agcgaggctg tgacatcaaa cgagacgaaa atcaaagacg ctatagccct gttcaccgcc
     2221 tcgacagagg agtcgctgaa aaaacaccgg gaaggggtga aagaggcgat gatgcagcac
     2281 aggaaggaca tgttaaagct ggcagggaat acgggcatga tgttactggg gatagtcttt
     2341 ctcctgttta ccgcgagtgg cgggacgctc tggtatcttg gcgggaggat acaggcgaac
     2401 ctggaagata tcaggaagca ggaagagaca ttgcagaaac tgaacgcgaa gacatggggc
     2461 gtggagtttg tgcaggacgg gaacaggaaa ttccttgtcc ttccgtgcgg gaaatcagcg
     2521 gaggtgattc cctttcaggg gaaagagtgg gtacatctga aggagtgaca cagagtgaca
     2581 gagctggaaa tacatttgct gaacgcctta gagcagctgc aacaggacta tatgcagcgg
     2641 ctgagcgaat gggagagcgc cttcgtggaa ttgcagaaga tgttttcgct tacgcaacgg
     2701 gacaacgcga tgctgaacga gcgggtcatg cagttgagtc agcaggtgca gcacttgagc
     2761 gagcagacag aacgcttgag ccagttatac agcgagaact ggagataaga gaggaacggt
     2821 tgatacagga gcgcgaacat gtgttatccc tggaacggga gcgtcagccg gaaatacagg
     2881 aacgcacgct ggatggccct tcgctgggat ggtgaaacca tgaaaaatgg cagcttcagt
     2941 ggattaagtg gggggaatgt ggcctgtacc atctggttgc ataggtattc atacggttaa
     3001 aatttatcag gcgcgatcgc ggcatttttt cgggtggttt gttgccattt ttacctgtct
     3061 gctgccgtga tcgcgctgaa cgcgttttag cggtgcgtac aattcggatg ttatggtaaa
     3121 tccagctgat tggcaggtat aaaaaagccg tccgtagacg gcctagtaag ttacttcgtc
     3181 tttgtcatca ctaccaattc ccatcggatg tcacctggga cattatgctg cctgtgattt
     3241 tgcggtggca aaggatcatc tttattgcac gtcacttcat caccacagtt cgtgcagcgg
     3301 taaatgccgg aagccggaca agtatttccc ggcttatagt aataccgcca tacactccct
     3361 tcaggctcgg ttgtttttgt taaaaatttc gctgtgctat ctacataaaa ggccatgttg
     3421 ctttccttac ataaactaag ttagggaccg aagcttgcat gcttcggtgg ttattgtttt
     3481 ttcttttccc gattaattgg gatcttaaac attcccccgt taggacgggt tatccgtttg
     3541 ccctttaccg ttatgtaagg gcgaaaaatg tatgcctgag gctcgtccgt ctgcatgttg
     3601 catttcctat tttcgccaca tgaatgttga tttttgctat caaaattgta ctgtagcaac
     3661 caacagatct tgtggctggc tttatcaaag cacttgaggt ggtactcaag cgccgcattt
     3721 gcgtatggtt tgttacgggt tagttctggt ggtacaggct aacccactta cttcaacaat
     3781 ttttgcttct cctcattcat gtttcactcc ctacgtattt ttttacagtg tcagcgccac
     3841 tgagcataaa cgcgacaaaa aggaaccatc cccacccaga taccgagtga aaagccagca
     3901 ctgctgagct aatcactgag gcaaatggga ccatttggta tagaaaaaac ttcatataca
     3961 cctcttttta agctggtcgt taacttatct actcataatg tgctgtctat tggacccttt
     4021 tgttgtttta gtacggggtt atgctattct taatctagaa ttttgtcaat attgtgcaat
     4081 ttttgagttt aagggtgttg ttaggggtgt tcttatgatg gttaacttta gtctttcaaa
     4141 cgcattttcc ttcatggaag ctcaaaatat gagcatgttg gcggtgtcgt catcgaaaga
     4201 cgatataaac ttggctaatg tagtgtcagt aagggatgag cggatactga agtctgcttt
     4261 gattttcgga gctaacgcta gcggaaaatc taatctcatg aagacaatat ctttaatgaa
     4321 agatattgtc ctgcattctg tgcaagctat cgaaagtagc attacgaaga atgtagtccc
     4381 ttttttactt gatgaggcgg ggcctactaa accatctgaa atggaaatga cttttattgc
     4441 ggatgggatt aaatacagat acggattatc tttatttcaa gggaagataa aagaagagtg
     4501 gttgtactac acgccaaaaa caagggagac tattctcttt gagcgagatg gtcaacttat
     4561 tgaaataaat aaagcagcat ttagcgagtc aaatcttttt ataaaggatg gggtcattca
     4621 gaagacaaga gaagatgttc cctttgtttc tgttgttgct ggatttaatg gggagcactc
     4681 aaagcgtgtt gtgaattggt ttagtaatgt ggtatttctt tctggttcta acgaaggaat
     4741 gtttactgga attaccatga agcttataaa tgaatctgaa gattttaaag cttggctaaa
     4801 aaaaatatta ccagcctttc agattaatga tatttatctt gatgaagttg cgcctgaatt
     4861 tccgtttggc aacataaaaa cagatgatga taatttaaaa aatttattca gctcgattca
     4921 gaattttgca aaaaatcaaa aagtattttc tcttagagtc gtgaaaaaaa ctgctaatgg
     4981 ggagatttcg gttcccattg attttgaatc agaggggacc aaaaagatag tctatctcct
     5041 tgggcctatt tataatgcca tgattaacaa taacttatta ttggttgatg agttcgattc
     5101 aaagttccat acccttttat ctaagttttt atttaggata tttcatgcgc aaagtgaagg
     5161 gtttagccaa gtaatcgctg cagttcagga tgttaattta atgaatactg attgctttag
     5221 acgagaccaa atttggtttg ttgacaagga tgtaaagtca gggagtagcc atctttattc
     5281 tttggttgag tacaaagaga aacaaagatc attgaagcca tcatatggga atgattattt
     5341 atcaggtgct tttgatgcaa tcccgttatt tgataatctt aatgaatttg aaaagctaat
     5401 gcctgaggga tgattatatg ccaaagagag gcaaaagcat tcgaagctct tcgaggaatg
     5461 aggaaacaaa accttcaaag agcacagcga aaacgactga tagatttata tctattagtt
     5521 ttaagcattt tcataacgtc gatgatgttg ggcagtccat aaatacatgg aaagatgatg
     5581 gtagcctacc tgatctcatt gaaaaattgg tttatctaac ggcgaatgga atcactaaag
     5641 tgatttctga cggtgtgttt actaactaca ctcgatttcc tgagtcagct gtaaacgatt
     5701 ttagatgccc agatgagata tcctctgatg aggattgggg ggttataaaa aacattggcg
     5761 ggcagaaaag aagagtcgcc ggatttctga gagataatgt gttctatatc gtgttttttg
     5821 atagagatca tcgcttctgg aagagtcaaa aatagatgag atacagttgt attgtatgtt
     5881 aagaaaagat cttcttgaga ttgtgatgct ctcgtcgtaa tctcttgctc tgtaaacgaa
     5941 aaaaccgcct tggcgggcgg tttttcgacg gttctaagag ttggcgctct gtgaaccaag
     6001 gtaactggct tatgaggagc gcagtaacca aatctgttct ttcagtttag ccttaacagg
     6061 c
//
