LOCUS       CP099163                4593 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB28-E3-C03 plasmid unnamed4, complete
            sequence.
ACCESSION   CP099163
VERSION     CP099163.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488598
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  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  JOURNAL   Unpublished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 4593)
  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                     :: RHB28-E3-C03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 105x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:31:12
            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)                     :: 4,712
            CDSs (total)                      :: 4,591
            Genes (coding)                    :: 4,369
            CDSs (with protein)               :: 4,369
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 61 of 222
            Pseudo Genes (incomplete)         :: 170 of 222
            Pseudo Genes (internal stop)      :: 40 of 222
            Pseudo Genes (multiple problems)  :: 40 of 222
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB28-E3-C03"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            153..992
                     /locus_tag="NFK34_23520"
     CDS             153..992
                     /locus_tag="NFK34_23520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFY47091.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(1680..1913)
                     /locus_tag="NFK34_23525"
     CDS             complement(1680..1913)
                     /locus_tag="NFK34_23525"
                     /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="WFY47092.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1920..2480)
                     /locus_tag="NFK34_23530"
     CDS             complement(1920..2480)
                     /locus_tag="NFK34_23530"
                     /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="WFY47093.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(2515..2949)
                     /locus_tag="NFK34_23535"
                     /pseudo=""
     CDS             complement(2515..2949)
                     /locus_tag="NFK34_23535"
                     /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(3158..3481)
                     /locus_tag="NFK34_23540"
     CDS             complement(3158..3481)
                     /locus_tag="NFK34_23540"
                     /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="WFY47094.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3544..3735
                     /locus_tag="NFK34_23545"
     CDS             3544..3735
                     /locus_tag="NFK34_23545"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="WFY47090.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3824..3908)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          3919..4474
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.728"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1583..3168)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caagccagtt accttggttc aaagagttgc tgctctgaga accttcgaaa agccgccttg
       61 ctgggcggtt ttttcgttta cggacaagac taccttcagg atcgttagat ctcaagacaa
      121 tcatgcatag tgagcataca caggagccga acttgcttac actgttcatc ttttttgttt
      181 tattaatagc tgcatgtttc ttttgttttg ctccaccacg aagaggatat gacagaaatg
      241 agatcattcc atacaaaata aaactatcaa taaataaata tcgcctttac atatactcat
      301 cgggaaaggt aagacaatac cttttatttt tagttatttt atcactgtac tactccatag
      361 cggaaccatt taagtctgag ttaataaaaa acatatcata ttcactgatg gctgcattta
      421 tttttgatac agggcttaat tttagcaagg agaatataac taaaggagtg atttcaacaa
      481 ggtggcataa tgacctatat tcatcatttg agagaatgaa agcaattaat aaaatttact
      541 acccatccaa caaagagata aacacagaag gtctatccaa agccatcaca tcatctcttt
      601 tcaatgatga cgcgaactcg ttcgcaaaga gagattttcg cttgatgtgg gacttatctt
      661 ctgaaaaata tctttcctat aaagaaataa taataagaaa aggcgataag cttgacgctg
      721 tatgcttgag atttataaat gatgactaca agtttttagt taatttcaac agagatgaag
      781 aggttttcaa atactttcca tctataatgc aaccttcact caaaacatat agagcgttat
      841 caagactagt aaactcaatc aaagatcctt ctagatttaa gttcacgaca gagtcattag
      901 aaatggagtt actagaatac ttagagttaa gaaatgaatt attcaatgac atagaagaag
      961 taatgggtag ctatgctcag agggcaccat agttcatgat agtcctcgat agtacttact
     1021 tatattttta gagaggttta agtgtaagta gagggagtaa cacctggttt ttcagcatcc
     1081 actccaatga atgctgacac cgatacgcga taattctctt tatcgtagca aaatcatcct
     1141 ccagattgcg gttgagaata ggttcatggt gcgcaatacg attgcgcagt tttctcacgg
     1201 gacttgttag cagtaatgct tccccccggg gacaaacgac agagatatac aacaaaggcc
     1261 cgcaattaaa atactccgta tttaccataa cgtcgcattg cgcgtaccgc ttaaacgcgt
     1321 tcagcgcgat cacggcagca gacaggtaaa aacagcaaca aaccacccga aaaactgccg
     1381 cgatcgcgcc tggtaaattt taacctcatg catagttatg cgcgaaactg aatgacgatc
     1441 agtttcgcac gttccagccg tcgaacgggg caaaatgggg aggtttggat attgttaatg
     1501 ctaatgtacg tacattaaca ttggcgccat ccgggtaggg cgtgccacaa actggctcga
     1561 tttcaggggg taccccggtc acatccccat tgacgggcca cgccagatcc gcgcttcggg
     1621 ttcctgctct tcatgccagc gccgggcaag ctcctgcgcc tgacgctcct gttcatccct
     1681 tatctgttgt tcgtgataaa taaccgactc aagcggtcga cttgcccggc taatagctgc
     1741 acctgctgac tcaagttcac gacacgctcg ttcagtatcg cgttgttctg ttgcgtaacc
     1801 gcgtgcatct tctgcaattc tgcgaaggcg ctctcccact cgttcagccg ccgcatatag
     1861 tcctgttgca aatgctctaa ggcgttcagc aaatgccctt ccagttccgt catactcgtt
     1921 tactccctga ccagcctcac ggcgttcttg tcgcccaccg tccaggtgtt ttcccctttc
     1981 accccgtccg gcagcaccag aaatttcccg ttctcgccat tgacgaacgt caccccccag
     2041 gtttttgcct cgagtttcgc cagcgtgttt tcctgctctc tgatggtcaa gatatttttc
     2101 gcaatcctgc tttcctgcca ctgaatcagc ccccagcacc ccaggaaaat gccgcccgtg
     2161 acgctgagcg cggtcagcgc cggaaacagt acccgccctt tgatcacctg ccagagcagg
     2221 tttttctgct gccgggacag ttcggcctct gtggtgctga gctgcgtgct cacggtggtg
     2281 ctcagcgtat ccagttgctg tttcacggat gttgtatgtt cgctgatagc gtctctgatt
     2341 ttctgcctgt ttaagctcag tgccttgtct acagactctt ctagcttcct gaactcgctg
     2401 ttcagcatgt tctcggtaga agcggctcgc tctttcagtt tcttctcgaa gtccgttccc
     2461 atttgtaaaa gattgctcat acagcgcccc ctttagcctg agattccgcc ccccctccgg
     2521 gtcggcaata ctgatactgc ttctggttgt cctcaccacc tcaaaacctg ccgctgtgag
     2581 cgcctcagtg acatcctgac gcgtttttat tgctccggca cggtaaagcg cctcaagacc
     2641 ccgtgtaatc gcttctgcgg cctcctgttt cgcttttggc agattattcg gtgtgacaag
     2701 cgtccgtctg ttctccggtg cgttcgggtc acgcagcccg taatgatgat taaccagcgt
     2761 ctgccaggca tttatcctcg gcctgtccgc acggtcgtag tacggctgga ggcgcttacc
     2821 gctctgtagt tccatgttcg gaatgacaaa attcagttcg agccgcccct tatcctggtg
     2881 ttccacccag agaatgctgt actggtcttt ttcgagaccg ggcataagaa cacgctcaaa
     2941 gctcgtcatc actctttcgc gttcacccgg cggtaactcc ttctccgcga acgacagaac
     3001 gcctgacgtg tatttcttcg aaaatggcgt ggcatcaatg agttcccgga tttcttccgg
     3061 gttaccccgg agcaccgttg cgccttcgcg gttacgctcc cgccccagca ggtaatcgac
     3121 cgggccactt ccaccgcctt tccccctggc atgaaattta actatcatcc cgtcccccct
     3181 gttccctgac agcctgccgc aactggcgca attcaccctc gatggccatc agagcggcca
     3241 ccacatgaac ccggtcaatc gaagaccagt ggccgctgtt caccttccgg gctgtctggt
     3301 tcagattgtt cccgatggca gccagatgcc gcagcaatgg cggcgatagt gtcggcagtt
     3361 ttcctgtgcg cgcaaccggc tcccccagac agacccgccg catccattct gccagtcgtt
     3421 taccctcgca gcgttccagt aaccgggcgt gctcctcatc gctaacccgt atcgtgagca
     3481 tcttctcgcg tttcatcggt atcattcccc ctaaaaaatc ccctattaag gagccttaag
     3541 accatgacca aacaggaaaa aacagccctt aacatggccc gctttatcag aagccagacg
     3601 ctgaccctgc tggaaaaact caacgagctg gacgcggacg aacaggcaga catctgcgaa
     3661 tcacttcacg accacgccga cgaactctac cgtagttgcc tcgcacgctt cggcgatgac
     3721 ggtgaaagca actgaaacat gcagctcccg gagacgttca cagcttgcct gtgagcggat
     3781 gccgggagca gacaagcccg tcagggcgcg tcagcgggtt ttagcgggtg tcggggcgca
     3841 gccctgaccc agtcacgtag cgatagcgga gtgtatactg gcttaactat gtggcatcag
     3901 tgcggattat aagaaaagtg caccatatgc ggtgtgaaat accgcacaga tgcgtaagga
     3961 gaaaatgccg catcaggcgc tcttccgctt cctcgctcac tgactcgcta cgctcggtcg
     4021 ttcggctgcg gcgagcggta tcagctcact caaagacggt gatgcggtta tccacagaat
     4081 caggggataa cgccaaaaga aacatgtgag caaaaggcca ggaacaggaa gaaggctgcg
     4141 ccgctggcgt ttttccatag gctccgcccc cctgacgagc atcacaaaaa cagatgctca
     4201 agtcagaggt ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctggaagc
     4261 tccctcgtgc gctctcctgt tccgaccctg ccgcttaccg gatacctgtc cgcctttctc
     4321 ccttcgggaa gcgtggcgct ttctcatagc tcacgctgtt ggtatctcgg cccggtgtag
     4381 gtcgttcgct ccaagctggg ctgtgtgcac gaaccccccg ttcagcccga ccgctgcgcc
     4441 ttatccggta actatcgtct tgagtccaac ccggaaagac acgtaaaaac gccactggca
     4501 gcagccattg gtaaccgttt agaggagtta gtcttgaagt tatgcgccgg ttaaggctaa
     4561 actgaaagga cagatttggt ggctgtgctc ctc
//
