LOCUS       CP098999                5792 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C05 plasmid unnamed3, complete
            sequence.
ACCESSION   CP098999
VERSION     CP098999.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488707
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5792)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5792)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB46-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 117x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:28:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,823
            CDSs (total)                      :: 4,706
            Genes (coding)                    :: 4,516
            CDSs (with protein)               :: 4,516
            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)              :: 190
            CDSs (without protein)            :: 190
            Pseudo Genes (ambiguous residues) :: 0 of 190
            Pseudo Genes (frameshifted)       :: 59 of 190
            Pseudo Genes (incomplete)         :: 126 of 190
            Pseudo Genes (internal stop)      :: 39 of 190
            Pseudo Genes (multiple problems)  :: 31 of 190
            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..5792
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C05"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5708..5792,1..1163)
                     /locus_tag="NFL43_24055"
     CDS             join(5708..5792,1..1163)
                     /locus_tag="NFL43_24055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WGB63817.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHDLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLKKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDKSYDCSDWFKQR
                     LEDIFKGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEIAFMNSLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSETTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(1615..1848)
                     /locus_tag="NFL43_24060"
     CDS             complement(1615..1848)
                     /locus_tag="NFL43_24060"
                     /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="WGB63818.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLSEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1855..2415)
                     /locus_tag="NFL43_24065"
     CDS             complement(1855..2415)
                     /locus_tag="NFL43_24065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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="WGB63819.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQFSTTEAELSRQQKKLLWQVIKGRILFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDRNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(2447..2884)
                     /locus_tag="NFL43_24070"
                     /pseudo=""
     CDS             complement(2447..2884)
                     /locus_tag="NFL43_24070"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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(3093..3416)
                     /locus_tag="NFL43_24075"
     CDS             complement(3093..3416)
                     /locus_tag="NFL43_24075"
                     /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="WGB63814.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3482..3673
                     /locus_tag="NFL43_24080"
     CDS             3482..3673
                     /locus_tag="NFL43_24080"
                     /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="WGB63815.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            4701..5711
                     /locus_tag="NFL43_24085"
     CDS             4701..5711
                     /locus_tag="NFL43_24085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB63816.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     NSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCILGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDDNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTITKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSIGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     Typing          complement(3759..3844)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="3.99e-36"
     Typing          3857..4411
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.075"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1518..3103)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.274"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caaaatgtgt aaaaagctca gaaattgaca aaaaagcatg cgaaacatac aaacttaact
       61 tcgacgaaga atcatattgt gatatacatg atgttgatat agatgaaagc ttcgatgttt
      121 tattggcagg atttccttgc caagcattct cttatgctgg aaaacaactt ggttttgcag
      181 acacccgagg tacattattt tttgaagtag aaagaattat aaagaaaaac aagcctaaat
      241 tgtgtctttt ggagaatgta cgtggattaa cttcacatga taaaggaagg acattttcaa
      301 caatattaaa atcccttcac gatttagggt atcatgttga atacagacta ttaaatacaa
      361 gtaattttgg cgtccctcaa aatagggtta gaatatatat aatagcctca ttaaaaaaag
      421 aggtaacgct tactattcct aatgatcttg gagccaaaga tacgcacaat tacaaaccat
      481 ccaaaggtgg tcatgatttt tatacagaat caaaagtttc tgacatacta gaggatagtc
      541 cagacaagtc atatgattgc agcgattggt tcaagcaacg ccttgaagat atttttaaag
      601 gtgacctgaa taaagttcat ggaatcaggc taattgacac aaggaacggc aactccttgc
      661 actcttggga tcttgggcta aaaggcgagt gctcaaatga tgaaatagct ttcatgaatt
      721 cattaattgc aaatcgtaga aagcatattt ttggcacaca ccaagacggc aaggctttgt
      781 caaaagcaca aattgaaaca tttttcaaac atagcgaaac caccaacata ataaaaaatc
      841 taattaaaaa gggttacctt aaagaaaaaa acggactata caacccagtt tgcggaaata
      901 tgtcttttga agtattcaaa ttccttgacc caaataaagt gtcaattaca cttactgcat
      961 ctgatgccaa tagacttgga gtctatcaca acaatagact gcgacgcctt acaccaagag
     1021 aatgtgcaag gctacaaggt tacccagact catatatctt acacccaaaa gatagcatgg
     1081 catataaaca attggggaat gctgtaagcg ttccagtcat taaaaatatt tttcttgata
     1141 taatgaagaa taacttcata taaactatat tactagcaaa actgctctat ggttatttaa
     1201 ttaaatttaa cagatttacc ataatgtcgc attacgcgca ccgctaaaac gcgttcagcg
     1261 cgatcacggc agcagacagg taaaaatggc aacaaaccac ccgaaaaact gccgcgatcg
     1321 cgcctggtaa attttaacct catgcatagt tatgcgcgaa actgaatgac gatcagtttc
     1381 gcacgttcca gccgtcgaac ggggtaaaat ggggaagttt ggatattgtt aatgctaatt
     1441 atgcatacat tagcattggc gtcatccggg tagagcgtgc cacaaactgg cacgatttca
     1501 ggtgacaccc cggtcacatc cccattgacg ggccacgcca gatccgcgct tcgggttcca
     1561 gctcttcatg ccagcgcagg gcaagctcct gcgcctgacg ctcctgttca tcccttatct
     1621 gttgttcgtg ataaataacc gactcaagcg gtctacttgt ccggctaata gctgcacctg
     1681 ctgactcaag ttcacgacac gctcgttcag tatcgcgttg ttctgttgcg taaccgcgtg
     1741 catcttctgc aattccgcga aggcgctctc ccactcgctc agccgccgca tatagtcctg
     1801 ctgcaaatgc tctaaggcgt tcagcaaatg cccttccagt tccgtcatac tcgtttactc
     1861 cctgaccagt ctcacggcat tcctgtcgcc caccgtccag gtgttttccc ctttcacccc
     1921 gtccggcagc accaggaatt tcccgttctc gccattgacg aacgtcaccc cccaggtttt
     1981 tgcctcgagt ttcgccagcg tgttttcctg ctctctgata gtcaggatat ttttcgcaat
     2041 cctgctttcc tgccactgaa tcagccccca gcatcccagg aaaatgccgc ccgtgacgct
     2101 gagcgcggtc agcgccggaa acagtatccg ccctttgatc acctgccaga gcagtttttt
     2161 ctgctgccgg gacagttcgg cctctgtggt gctgaactgc gtgctcacgg tggtgctcag
     2221 cgtatccagt tgctgtttca cggatgttgt atgttcgctg atagcgtctc tgattttctg
     2281 cctgtttaag ctcagtgcct tgtctacaga ctcttcgagc ttcctgaact cgctgttcag
     2341 catgttctcg gtagaagcgg ctcgctcttt gagtttcttc tcgaagtctg ttcccatttg
     2401 taaaagattg ctcatacagc gcccccttta gcctgagatt ccgccccccc tccgggtcgg
     2461 caatacttat gctgcttttg gttgtcctca ccacctcaaa acctgccgct gtaagcgcct
     2521 ctgtgacatc ctgacgcgtt tttattgctc cggcatggta aagagcctca agaccccgtg
     2581 taatcgcctc tgcggcctcc tgtttcgctt ttggcagatt atttggcgtg acaagcgtcc
     2641 gtctgttctc cggtgcgttc gggtcacgca gcccgtaatg atgattaacc agcgtctgcc
     2701 aggcatcaat tctcggcctg tctgcccggt cgtagtacgg ctggaggcgt tttccgctct
     2761 gtagctccat gttcggaatg acaaaattca gctcaagacg ccccttgtcc tggtgctcca
     2821 cccacagaat gctgtactga tttttttcga gaccgggcat cagtacgcgc tcaaagctct
     2881 ccatcacttt ttcacgtcct cccggcggca gttccttctc tgcgaacgac agaacaccgg
     2941 acgtgtattt cttcgcaaat ggcgtggcat caataagctc ccggacttct tccgggttac
     3001 cctgaagtac cgttgcacct tcccggttac gctccctccc cagaaggtaa tcaaccggac
     3061 cactgccacc accttttccc cgggcatgaa acttaactat catcccgcgc tccctgttcc
     3121 ctgacgacct gccgtaagct gcgcaactct ctctcgatgg ccatcagtgc ggccaccacc
     3181 tgaacccggt cgccggaaga ccactgcccg ctgttcacct tcctcgccgt ctgattcagg
     3241 ttattcccga tggcagccag ctgacgcagt aacggcggtg ccagtgtcgg cagcttcccg
     3301 gaacgggcaa ccggctcacc caggcagacc cgccgcatcc ataccgccag ttgtttaccc
     3361 tcacagcgtt ccagtaaccg ggcatgttca tcatcagtaa cccgtatcgt gagcatcctc
     3421 tcgcgtttca tcggtatcat tacccccatg aacagaaatc cccccttaca cggaggcatc
     3481 agtgactaaa caggaaaaaa ccgcccttaa catggcccgc tttatcagaa gccagacatt
     3541 aacgctgctg gagaaactca acgaactgga cgcggatgaa caggcagaca tctgtgaatc
     3601 gcttcacgac cacgctgatg agctttaccg cagctgcctc gcgcgtttcg gtgatgacgg
     3661 tgaaaacctc tgacacatgc agctcccgga gacggtcaca gcttgcctgt gagcggatgc
     3721 cgggagcaga caagcccgtc agggcgcgtc agcaggtttt agcgggtgtc ggggcgcagc
     3781 catgacccag tcacgtagcg atagcggagt gtatactggc ttaactatgc ggcatcaatg
     3841 cagattgtat gaaaagtgcc ccatgccggg tgtgaaattc cgcacagatg cgtaaggaga
     3901 aaatgcacgt tccggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt
     3961 cggctgcggc gagcggtgtc ggctcactca aaagcggaga tgcggttatc ctcagaatca
     4021 ggggataacg ccaaaagaaa catgtgagca aaaaacgaga acccggaaaa ggccacgccg
     4081 ctggcgtttt tccataggct ccgcccccct gacgagcatc acaaaaaccg acgctcaagt
     4141 cagaggtggc gaaacccgac aggactataa agataccagg cgtttccccc tggaagctcc
     4201 ctcgtgcgct ctcctgttcc gaccctgccg cttaccggat acctgtccgc ctttctccct
     4261 tcgggaagcg tggcgctttc tcatagctca cgctgttggt atctcagttc ggtgtaggtc
     4321 gttcgctcca agctgggctg tgtgcacgaa ccccccgttc agcccgaccg ctgcgcctta
     4381 tccggtaact gtcgtcttga gtccaacccg gaaagacatg caaaagcacc actggcagca
     4441 gccattggta gagggtgtac aagaaattgc tgatacggag ttcttgaagt gaaggcccga
     4501 ctgcggctac actgaaagga cagatttggt ggcagcggtc ttgtacgccc tgttaccttg
     4561 ggttagaaag cctgagaaac ttctaacctt cgaaaaaccc acgcctgaga acgtgggttt
     4621 tttcgtttac gcccgtagag attacccatc ataggggtgt aactcaaggt ctatttggat
     4681 agttttacca aggaataatc atggagttcc aagaattaga aaatagcgca tgcttatact
     4741 ggcccaaaga acttgcagaa agagcagcat ctattagcgc cataagccct cttatagaga
     4801 cccaagatga atttttatca atactaacaa tatcaacaaa taagcctaca tcttgttttg
     4861 atgctgtacg gttatgcaat aagatatcac ccaacctatt tgtcaagcac ctaatggttt
     4921 tgtcagatat tggaggcgaa agacttcatc gcttttttaa agatttagat aaaatctatc
     4981 ctgacagaat aatggagttc aatataggga ataactctta ctcttaccaa ttcaatagca
     5041 atagagcatg gacaaccaag aatttaaacg tggaaaaatc acgacttttg caacctgtaa
     5101 gtgattttac acgagaaatg cttgatgttt gcatgctgat cctgtgggga ggtaacacta
     5161 taaacaatac aaaccttcca actgaaatag aaaataactg tattttggga aatttaattg
     5221 ggaacaaaga agcaatagaa caatttgtaa aagaaagata tataatggtt agcagacaaa
     5281 caggaggtgc aacggcaaat gatcttggac acatatgcga gatctttata aaagaaaaac
     5341 tttataaact tattgatgat aatatatctc tagatggaca ccatatcgat ggtgtaactc
     5401 ataacgataa agaccttacg acttttgata ttgtagcaaa aaacacgata acaaaaaaat
     5461 gtgttggtat tgaaataagt tttcaagtta caacaaactc aacaatagaa agaaaagcag
     5521 gattagccaa aagcagaaga gatttactca attcaatagg gcataaaata gcatatgtga
     5581 ttgatgggtc tggtaatttt cagcgctcaa atgccataaa aacaataatt aaccatagtg
     5641 acatgactgt taacttttca gataatggta taaattcact agcaacattc atctgcgaga
     5701 cattgaaatg attaaatttg ttgacctttt ttctggcaca ggtggtatta gacttggttt
     5761 tgagcaagcc atgaaagaaa ttggattgtc aa
//
