LOCUS       CP057926                4612 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB09-C24 plasmid pRHB09-C24_5, complete
            sequence.
ACCESSION   CP057926
VERSION     CP057926.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148054
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4612)
  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 4612)
  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-C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 77.4169165090354x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:06:34
            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)                     :: 5,160
            CDSs (total)                      :: 5,043
            Genes (coding)                    :: 4,941
            CDSs (with protein)               :: 4,941
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 102
            CDSs (without protein)            :: 102
            Pseudo Genes (ambiguous residues) :: 0 of 102
            Pseudo Genes (frameshifted)       :: 34 of 102
            Pseudo Genes (incomplete)         :: 61 of 102
            Pseudo Genes (internal stop)      :: 30 of 102
            Pseudo Genes (multiple problems)  :: 20 of 102
            CRISPR Arrays                     :: 1
            ##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..4612
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB09-C24"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB09-C24_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(914..1105)
                     /locus_tag="HVW37_25770"
     CDS             complement(914..1105)
                     /locus_tag="HVW37_25770"
                     /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="QMO67518.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1170..1493
                     /locus_tag="HVW37_25775"
     CDS             1170..1493
                     /locus_tag="HVW37_25775"
                     /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="QMO67523.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGTR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1651..2193
                     /locus_tag="HVW37_25780"
                     /pseudo=""
     CDS             1651..2193
                     /locus_tag="HVW37_25780"
                     /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            2171..2689
                     /locus_tag="HVW37_25785"
     CDS             2171..2689
                     /locus_tag="HVW37_25785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001525988.1"
                     /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="QMO67519.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIRDAIALFTASTEESLEKHREGVKEAMMQHRRDVLKLAGNTGMMLLGIVFLLFTVSG
                     GTLWYLGGRIQANLEDIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVISFQ
                     GKEWVHLKG"
                     /name="MbeB family mobilization protein"
     gene            2696..2929
                     /gene="mbeD"
                     /locus_tag="HVW37_25790"
     CDS             2696..2929
                     /gene="mbeD"
                     /locus_tag="HVW37_25790"
                     /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="QMO67520.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="mbeD"
     gene            3293..3529
                     /locus_tag="HVW37_25795"
     CDS             3293..3529
                     /locus_tag="HVW37_25795"
                     /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="QMO67521.1"
                     /translation="MSIIIDREKYTALMTLIQTSQGYVGSKVQPNGYTLKCSFDTGFAC
                     CISRNTRNSNLSVHFENESTDPATHFAILSAIS"
                     /name="hypothetical protein"
     gene            complement(3650..4312)
                     /locus_tag="HVW37_25800"
     CDS             complement(3650..4312)
                     /locus_tag="HVW37_25800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001423320.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="QMO67522.1"
                     /translation="MELTPLKTIVYVDGFNFYYRKLKDSNKKWLNIKAMVEKLLPDDEI
                     IGINYYTARISGRIDSDAPRRQQIYFNALKSIDNLSIHYGTFSVNESRMFLVQPLDFKH
                     HLKNPNQKIKFANVLKTEEKGSDVNLGCHLVRDGFQGKYEKAVIITNDTDLAEPMRVVK
                     SELSLYIELLSPVNKPARTLSAICDKVTLISDQSIADSQFEDVIVVGEKTVTKPAQW"
                     /name="NYN domain-containing protein"
     Typing          744..829
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="3.99e-36"
     Typing          complement(190..718)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.636"
                     /coverage="98.0"
                     /evalue="3.01e-155"
     Typing          1484..3033
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.42"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggtggtttt tcgaaggtta gttaatcctg gcagattctc taaccgcggt aacggtcttg
       61 tgcgagacat gtcaccaaat ctgtcctttc agtgtagccg tagtcaggcc gccacttcaa
      121 gaactctcga tacatctctc gcacatcctg tttaccagtg gccgttgcca atggcgatta
      181 gtcgtgtctt tccgggttgg actcaagttg atagttaccg gataagacgc agcggtcgga
      241 ctgaacgggg ggttcgtgca tacagtccag cttggagcga actgccttcc cggagccgag
      301 tgtcaggcgt ggaatgagaa accgcggcca taacagcgga atgacaccgg tacaccgaaa
      361 ggcaggaaca ggagagcgca cgagggagct tccaggggga aacgcctggt atctttatag
      421 tcctgtcggg tttcgccacc tctgacttga gcgtcaattt ttgtgatgct cgtcaggggg
      481 gcggagccta tggaaaaacg cctgcggcgc ggcctttttc cctggttttg cctttttgtt
      541 cacatgttct ttccggcctt atcccctgat tctgtggata accgcattac cgtctttgcg
      601 tgagctgata ccgctcgccg cagccgaacg accgagcgta gcgagtcagt gagcgaggaa
      661 gcggaagagc gcctgatgcg gtattttctc cttacgcatc tgtgcggtat ttcacaccgc
      721 atatggtgct cttttcttat aatctgcact gatgccacat agttaagcca gtatacactc
      781 cgctatcgct acgtgactgg gtcatggctg cgccccgaca cccgctaaaa ccccctgacg
      841 cgccctgacg ggcttgtctg ctcccggcat ccgctcacag acaagctgtg accgtctccg
      901 ggagctgtat gtgtcagagg ttttcaccgt catccccgaa gcgtgcgagg cagctgcggt
      961 aaagctcgtc ggcgtggtcg tgaagtgatt cacaaatatc ggcctgttca tctgcgtcca
     1021 gttcgttgag cttctccagc agcgttaatg tctggcttct tataaagcgg gccatgttaa
     1081 gggcggtttt ttcctgtttg gtcactgatg cctccgtgta agggggattt ctgttcatgg
     1141 gggtaatgat accgatgaaa cgcgagagga tgctcacgat acgggttact gatgatgaac
     1201 atgccaggtt acttgaacgc tgtgagggta aacaactggc ggtatggatg cggcgggtct
     1261 gcctggggga gccggttgcc cgttccggga aactgccgac actggcaccg ccgttactgc
     1321 gtcagctggc cgccatcggg aataacctga atcagacagc gaggaaggtg aacagcgggc
     1381 agtggtcttc cggtgaccgg gttcaggtgg tggccgcact gatggccatc ggggatgagc
     1441 tgcgccggct gcgtctggcc gtcagggaac aggggacgcg ggatgatagt taagtttcat
     1501 gccaggggaa aaggcggtgg cagtggtccg gttgattacc tgctggggag ggagcgtaac
     1561 cgggagggcg caaaggtgct tcagggtaac ccggaagaag tccgggaact catcgatgcc
     1621 acgccatttg cgaagaaata cacgtccggt gttctgtcgt tcgcggagaa ggaactgccg
     1681 ccgggaggac gtgaaaaagt gatggcgagt tttgagcgtg tactgatgcc cggtctcgaa
     1741 aaaaatcagt acagcattct gtgggtggag caccaggaca aggggcggct tgagcttaat
     1801 tttgtcattc cgaacatgga gctacagagc ggaaaacgcc tccagccgta ctacgaccgc
     1861 gcagacaggc cgagaattga tgcctggcag acgctggtga atcaccatta cgggctgcat
     1921 gaccccaacg ccccggagaa ccgccggata ctgactctcc ctgataacct gccggaaacg
     1981 aaacaggcgc ttgcagagag cgtcacacgc gggatagacg ctctttatca tgtcggggag
     2041 ataaaaggcc gtcaggatgt gattcaggcg ctcacagagg cagggcttga agtggtcagg
     2101 gtgacgcgaa gcagtatcag cattgcagac ccgaacggtg ggaagaatat caggctgaaa
     2161 ggagcatttt atgagcaatc ttttgcagac gggcgcggag ttcgagaaaa agctgaaaga
     2221 gagagccgaa tctacagaga aaatgctgaa caacgagttc aggaggctcg gcgaatctgt
     2281 aagcgaggct gtgacatcaa acgagacgaa aatcagagac gctatagccc tgttcacagc
     2341 ctcgacagag gaatctctgg aaaaacaccg ggaaggggtg aaagaggcga tgatgcagca
     2401 caggagggac gtgttaaagc tggcagggaa tacgggcatg atgttgctgg ggatagtctt
     2461 tctcctgttt accgtgagtg gcgggacgct ctggtatctt ggcgggagga tacaggcgaa
     2521 cctggaagat atcaggaagc aggaagagac attgcagaaa ctgaacgcga agacatgggg
     2581 cgtggagttt gtgcaggacg ggaacaggaa atttctggtc cttccttacg ggaagtcagc
     2641 agaggtgatt tcctttcagg ggaaggaatg ggtacatctg aaggggtgac acagagtgac
     2701 agagctggaa acacatttgc tgaacgcctt agagcagctg caacaggact atatgcagcg
     2761 gctgagcgaa tgggagagcg ccttcgtgga attgcagaag atgttttcgc ttacgcaacg
     2821 ggacaacgcg atgctgaacg agcgggtcat gcagttgagt cagcaggtgc agcacttgag
     2881 cgagcagaca gaacgcttga gccagttata cagcgagaac tggagataag agaggaacgg
     2941 ttgatacagg agcgcgaata tgcgttatcc ctggaacggg agcgtcagcc ggaaatacag
     3001 gaacgcacgc tggatggccc ttcgctggga tggtgaaact atgaaaaatg gcaggttcag
     3061 tggattttga cggactaatg tagtctgcac catcttgttg cataggtatt catgcggtta
     3121 aaatttatca ggcgcgatcg cggcagtttt tcgggaggtt tgttgcctgt ttttccggtt
     3181 tcccgtcaga aacgcgctga gagcgtctga ggcggtgcgg gcaacgggag ttatggtaaa
     3241 tagatttatt gctgaggttt aatgcctgca gagtaatact aatggggatg tgatgagtat
     3301 tattattgat cgtgaaaaat atactgcttt gatgacgttg atccagacat ctcaaggata
     3361 tgttggctca aaagtacaac caaatggata tacattgaag tgttctttcg acactggttt
     3421 tgcatgttgt atctctagaa atactagaaa tagtaactta tctgttcatt ttgaaaatga
     3481 aagtacagat cctgcaactc actttgctat tttaagtgct attagctaat tttttatttt
     3541 ctgcacatag ctatagattt catactcttt atatttgcct gaaggtataa tgcaaaacat
     3601 aaaaagcccg ggggacgggc tttttttcaa cagaacgagt atgtagccac taccactgtg
     3661 ctggttttgt cacggttttc tcaccaacta caataacgtc ttcaaactgg ctatcagcta
     3721 ttgattggtc gcttataaga gtgaccttat cgcatattgc gctcagggtt cttgctggtt
     3781 tgtttacagg agaaagtagt tcaatataaa ggctgagctc tgatttgact actctcattg
     3841 gttcagccaa atctgtatca ttagttatta ttacagcctt ctcgtatttc ccttggaaac
     3901 catctctaac caagtggcaa cctaaattaa cgtcagaacc cttttcttct gtctttaaga
     3961 cgtttgcaaa ctttattttt tgattcgggt tttttaagtg atgtttgaaa tcaagaggct
     4021 gcactaaaaa cattctgctt tcattcaccg aaaaagtacc ataatggata cttaggttat
     4081 ctatgctttt cagtgcattg aaatatattt gttgcctacg aggtgcgtca gaatcaatcc
     4141 ttcctgagat cctagccgtg taatagttaa ttcctattat ttcatcatcc ggtagcaatt
     4201 tttcgaccat tgcttttatg ttcagccact ttttgttgga atctttcagc ttacgataat
     4261 aaaagttaaa gccatcaaca taaactattg ttttcaatgg ggttagctcc attttagata
     4321 taaaaaaaac cgcatctgcg gttttttttc ctacggcacg ccgtaggagg ggtgtttgcc
     4381 tgcggctcgc cacaggaggg ttgtttcttc gcctgcggca cgccacaggg gggttgtttc
     4441 ttcgcctgcg gcacgccaca ggtctgtacc aacattattg catttttttt gtctagtgca
     4501 aatgttttat atggtgacga agtaagccct acctaaagga gaaaagatct tcttgagatc
     4561 ctttttttct gcgcgtaatc tcctgctttg aaaacgaaaa aaccaccctg gc
//
