LOCUS       CP099157                4593 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB28-E3-C06 plasmid unnamed5, complete
            sequence.
ACCESSION   CP099157
VERSION     CP099157.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488599
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  JOURNAL   Unpublished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-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 112x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:26:04
            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)                     :: 4,813
            CDSs (total)                      :: 4,694
            Genes (coding)                    :: 4,500
            CDSs (with protein)               :: 4,500
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 194
            CDSs (without protein)            :: 194
            Pseudo Genes (ambiguous residues) :: 0 of 194
            Pseudo Genes (frameshifted)       :: 74 of 194
            Pseudo Genes (incomplete)         :: 120 of 194
            Pseudo Genes (internal stop)      :: 41 of 194
            Pseudo Genes (multiple problems)  :: 33 of 194
            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-C06"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(237..470)
                     /locus_tag="NFK35_24035"
     CDS             complement(237..470)
                     /locus_tag="NFK35_24035"
                     /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="WFY51593.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(477..1037)
                     /locus_tag="NFK35_24040"
     CDS             complement(477..1037)
                     /locus_tag="NFK35_24040"
                     /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="WFY51594.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(1072..1506)
                     /locus_tag="NFK35_24045"
                     /pseudo=""
     CDS             complement(1072..1506)
                     /locus_tag="NFK35_24045"
                     /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(1715..2038)
                     /locus_tag="NFK35_24050"
     CDS             complement(1715..2038)
                     /locus_tag="NFK35_24050"
                     /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="WFY51596.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2101..2292
                     /locus_tag="NFK35_24055"
     CDS             2101..2292
                     /locus_tag="NFK35_24055"
                     /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="WFY51595.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3303..4142
                     /locus_tag="NFK35_24060"
     CDS             3303..4142
                     /locus_tag="NFK35_24060"
                     /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="WFY51592.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     Typing          complement(2381..2465)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(2853..3304)
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(140..1725)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttcgcacgtt ccagccgtcg aacggggcaa aatggggagg tttggatatt gttaatgcta
       61 atgtacgtac attaacattg gcgccatccg ggtagggcgt gccacaaact ggctcgattt
      121 cagggggtac cccggtcaca tccccattga cgggccacgc cagatccgcg cttcgggttc
      181 ctgctcttca tgccagcgcc gggcaagctc ctgcgcctga cgctcctgtt catcccttat
      241 ctgttgttcg tgataaataa ccgactcaag cggtcgactt gcccggctaa tagctgcacc
      301 tgctgactca agttcacgac acgctcgttc agtatcgcgt tgttctgttg cgtaaccgcg
      361 tgcatcttct gcaattctgc gaaggcgctc tcccactcgt tcagccgccg catatagtcc
      421 tgttgcaaat gctctaaggc gttcagcaaa tgcccttcca gttccgtcat actcgtttac
      481 tccctgacca gcctcacggc gttcttgtcg cccaccgtcc aggtgttttc ccctttcacc
      541 ccgtccggca gcaccagaaa tttcccgttc tcgccattga cgaacgtcac cccccaggtt
      601 tttgcctcga gtttcgccag cgtgttttcc tgctctctga tggtcaagat atttttcgca
      661 atcctgcttt cctgccactg aatcagcccc cagcacccca ggaaaatgcc gcccgtgacg
      721 ctgagcgcgg tcagcgccgg aaacagtacc cgccctttga tcacctgcca gagcaggttt
      781 ttctgctgcc gggacagttc ggcctctgtg gtgctgagct gcgtgctcac ggtggtgctc
      841 agcgtatcca gttgctgttt cacggatgtt gtatgttcgc tgatagcgtc tctgattttc
      901 tgcctgttta agctcagtgc cttgtctaca gactcttcta gcttcctgaa ctcgctgttc
      961 agcatgttct cggtagaagc ggctcgctct ttcagtttct tctcgaagtc cgttcccatt
     1021 tgtaaaagat tgctcataca gcgccccctt tagcctgaga ttccgccccc cctccgggtc
     1081 ggcaatactg atactgcttc tggttgtcct caccacctca aaacctgccg ctgtgagcgc
     1141 ctcagtgaca tcctgacgcg tttttattgc tccggcacgg taaagcgcct caagaccccg
     1201 tgtaatcgct tctgcggcct cctgtttcgc ttttggcaga ttattcggtg tgacaagcgt
     1261 ccgtctgttc tccggtgcgt tcgggtcacg cagcccgtaa tgatgattaa ccagcgtctg
     1321 ccaggcattt atcctcggcc tgtccgcacg gtcgtagtac ggctggaggc gcttaccgct
     1381 ctgtagttcc atgttcggaa tgacaaaatt cagttcgagc cgccccttat cctggtgttc
     1441 cacccagaga atgctgtact ggtctttttc gagaccgggc ataagaacac gctcaaagct
     1501 cgtcatcact ctttcgcgtt cacccggcgg taactccttc tccgcgaacg acagaacgcc
     1561 tgacgtgtat ttcttcgaaa atggcgtggc atcaatgagt tcccggattt cttccgggtt
     1621 accccggagc accgttgcgc cttcgcggtt acgctcccgc cccagcaggt aatcgaccgg
     1681 gccacttcca ccgcctttcc ccctggcatg aaatttaact atcatcccgt cccccctgtt
     1741 ccctgacagc ctgccgcaac tggcgcaatt caccctcgat ggccatcaga gcggccacca
     1801 catgaacccg gtcaatcgaa gaccagtggc cgctgttcac cttccgggct gtctggttca
     1861 gattgttccc gatggcagcc agatgccgca gcaatggcgg cgatagtgtc ggcagttttc
     1921 ctgtgcgcgc aaccggctcc cccagacaga cccgccgcat ccattctgcc agtcgtttac
     1981 cctcgcagcg ttccagtaac cgggcgtgct cctcatcgct aacccgtatc gtgagcatct
     2041 tctcgcgttt catcggtatc attcccccta aaaaatcccc tattaaggag ccttaagacc
     2101 atgaccaaac aggaaaaaac agcccttaac atggcccgct ttatcagaag ccagacgctg
     2161 accctgctgg aaaaactcaa cgagctggac gcggacgaac aggcagacat ctgcgaatca
     2221 cttcacgacc acgccgacga actctaccgt agttgcctcg cacgcttcgg cgatgacggt
     2281 gaaagcaact gaaacatgca gctcccggag acgttcacag cttgcctgtg agcggatgcc
     2341 gggagcagac aagcccgtca gggcgcgtca gcgggtttta gcgggtgtcg gggcgcagcc
     2401 ctgacccagt cacgtagcga tagcggagtg tatactggct taactatgtg gcatcagtgc
     2461 ggattataag aaaagtgcac catatgcggt gtgaaatacc gcacagatgc gtaaggagaa
     2521 aatgccgcat caggcgctct tccgcttcct cgctcactga ctcgctacgc tcggtcgttc
     2581 ggctgcggcg agcggtatca gctcactcaa agacggtgat gcggttatcc acagaatcag
     2641 gggataacgc caaaagaaac atgtgagcaa aaggccagga acaggaagaa ggctgcgccg
     2701 ctggcgtttt tccataggct ccgcccccct gacgagcatc acaaaaacag atgctcaagt
     2761 cagaggtggc gaaacccgac aggactataa agataccagg cgtttccccc tggaagctcc
     2821 ctcgtgcgct ctcctgttcc gaccctgccg cttaccggat acctgtccgc ctttctccct
     2881 tcgggaagcg tggcgctttc tcatagctca cgctgttggt atctcggccc ggtgtaggtc
     2941 gttcgctcca agctgggctg tgtgcacgaa ccccccgttc agcccgaccg ctgcgcctta
     3001 tccggtaact atcgtcttga gtccaacccg gaaagacacg taaaaacgcc actggcagca
     3061 gccattggta accgtttaga ggagttagtc ttgaagttat gcgccggtta aggctaaact
     3121 gaaaggacag atttggtggc tgtgctcctc caagccagtt accttggttc aaagagttgc
     3181 tgctctgaga accttcgaaa agccgccttg ctgggcggtt ttttcgttta cggacaagac
     3241 taccttcagg atcgttagat ctcaagacaa tcatgcatag tgagcataca caggagccga
     3301 acttgcttac actgttcatc ttttttgttt tattaatagc tgcatgtttc ttttgttttg
     3361 ctccaccacg aagaggatat gacagaaatg agatcattcc atacaaaata aaactatcaa
     3421 taaataaata tcgcctttac atatactcat cgggaaaggt aagacaatac cttttatttt
     3481 tagttatttt atcactgtac tactccatag cggaaccatt taagtctgag ttaataaaaa
     3541 acatatcata ttcactgatg gctgcattta tttttgatac agggcttaat tttagcaagg
     3601 agaatataac taaaggagtg atttcaacaa ggtggcataa tgacctatat tcatcatttg
     3661 agagaatgaa agcaattaat aaaatttact acccatccaa caaagagata aacacagaag
     3721 gtctatccaa agccatcaca tcatctcttt tcaatgatga cgcgaactcg ttcgcaaaga
     3781 gagattttcg cttgatgtgg gacttatctt ctgaaaaata tctttcctat aaagaaataa
     3841 taataagaaa aggcgataag cttgacgctg tatgcttgag atttataaat gatgactaca
     3901 agtttttagt taatttcaac agagatgaag aggttttcaa atactttcca tctataatgc
     3961 aaccttcact caaaacatat agagcgttat caagactagt aaactcaatc aaagatcctt
     4021 ctagatttaa gttcacgaca gagtcattag aaatggagtt actagaatac ttagagttaa
     4081 gaaatgaatt attcaatgac atagaagaag taatgggtag ctatgctcag agggcaccat
     4141 agttcatgat agtcctcgat agtacttact tatattttta gagaggttta agtgtaagta
     4201 gagggagtaa cacctggttt ttcagcatcc actccaatga atgctgacac cgatacgcga
     4261 taattctctt tatcgtagca aaatcatcct ccagattgcg gttgagaata ggttcatggt
     4321 gcgcaatacg attgcgcagt tttctcacgg gacttgttag cagtaatgct tccccccggg
     4381 gacaaacgac agagatatac aacaaaggcc cgcaattaaa atactccgta tttaccataa
     4441 cgtcgcattg cgcgtaccgc ttaaacgcgt tcagcgcgat cacggcagca gacaggtaaa
     4501 aacagcaaca aaccacccga aaaactgccg cgatcgcgcc tggtaaattt taacctcatg
     4561 catagttatg cgcgaaactg aatgacgatc agt
//
