LOCUS       CP099236                6230 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB13-SO-C02 plasmid unnamed5, complete
            sequence.
ACCESSION   CP099236
VERSION     CP099236.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488538
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6230)
  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  JOURNAL   Unpublished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 6230)
  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                     :: RHB13-SO-C02
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 109x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 21:11:33
            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)                     :: 5,054
            CDSs (total)                      :: 4,932
            Genes (coding)                    :: 4,770
            CDSs (with protein)               :: 4,770
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 162
            CDSs (without protein)            :: 162
            Pseudo Genes (ambiguous residues) :: 0 of 162
            Pseudo Genes (frameshifted)       :: 69 of 162
            Pseudo Genes (incomplete)         :: 96 of 162
            Pseudo Genes (internal stop)      :: 35 of 162
            Pseudo Genes (multiple problems)  :: 34 of 162
            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..6230
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB13-SO-C02"
                     /isolation_source="Pooled soil sample collected from floor
                     of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4879..6230,1..376))
                     /locus_tag="NFJ74_25240"
     CDS             complement(join(4879..6230,1..376))
                     /locus_tag="NFJ74_25240"
                     /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="colicin"
                     /protein_id="WFW53610.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGNGNGGGNGNSGGGSNSSVAAVAFGFPALATPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPNMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTTLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            complement(597..1130)
                     /locus_tag="NFJ74_25245"
     CDS             complement(597..1130)
                     /locus_tag="NFJ74_25245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFW53611.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(1133..2059)
                     /locus_tag="NFJ74_25250"
     CDS             complement(1133..2059)
                     /locus_tag="NFJ74_25250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WFW53612.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIEGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFETAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREYGFD
                     MRDGVSRQERTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2236..2634
                     /locus_tag="NFJ74_25255"
     CDS             2236..2634
                     /locus_tag="NFJ74_25255"
                     /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="WFW53613.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQENERKQAVQNRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQELKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(2895..3914)
                     /locus_tag="NFJ74_25260"
     CDS             complement(2895..3914)
                     /locus_tag="NFJ74_25260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WFW53614.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(4411..4554)
                     /locus_tag="NFJ74_25265"
     CDS             complement(4411..4554)
                     /locus_tag="NFJ74_25265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_072020761.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0019867 - outer membrane [Evidence IEA]; GO_process:
                     GO:0019835 - cytolysis [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WFW53608.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     gene            complement(4616..4876)
                     /locus_tag="NFJ74_25270"
     CDS             complement(4616..4876)
                     /locus_tag="NFJ74_25270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000412701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WFW53609.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     BGC             1..6230
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          complement(3140..3914)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(1137..2059)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.403"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgcgctgaa tttaaacgga cctttcaggg ctgcaaagat atcagctatt gccgcagata
       61 aagcctcacc agagacggcg atacccagcg ttccggcacc aggagttgcc aaagcaggaa
      121 aaccaaatgc cactgctgct acggatgaat tgctgccacc accggaatta ccattccccc
      181 cgccattacc attgccggag ccacctcccc agtgaacacc actaccggaa ccgccacccc
      241 atggattatt ttccgaactc catcctgaac cgtcagaagc cccaccattt ccaccaagcc
      301 ccgtagggcc gccattaatg ttaccacctg tgttatgtgc gccactgttg tggtcgcgtc
      361 catctccacc gctcataaaa attccctctt ttaagcgtta aaacaattga ttacatagtt
      421 aatactgtac ataaaaccac tggttttatg tacagatcaa aaagtactcg tcattatttt
      481 ttctgtcaag tcaggggggg atattttttg gcagttcgga ggaatcactc atgaaaacgg
      541 tgaacggaac gcgaaatcct ttcgcgggtc gtgaggcgtt ggacaagcga agcgcgtcag
      601 tttttccggc tcttacccgt gacaggtttc tccaccagtt tatcttccag tgtcacaact
      661 ttctgataca ccgccgctgt ggcgttgtag ttcctgtcga gtattgtttt cattccccat
      721 ccgagcacac agaacataac cagaaaagcc actgacaccc cacccagcca tttccagcta
      781 taccctttaa gggtgttgta ttcctgcacg atattgctgt gaattgtcgc aatatccctg
      841 ttcagggcat ccgcgtttgc cttcatgttt gcgactgact cttccagccg ctgaaaatcc
      901 tggctgatgc gctcacctat cagtcctgcc acgtccagct tctgcacctc atttctgact
      961 tcatccctga cctgttttgc cacaccgtca gaaatatccc gatatccgcg aagtgtttcc
     1021 cttgccacag ccagagaatc agcaacagct ttctgttgct ccattgcggt atgttgcaga
     1081 tgctccaccg ataacaggag cgtgagtaat ttttcttctg tgctggccat gttcagaatc
     1141 ccatagaaaa tccacgtgac ggtgatttaa cccgttcagg ttcagttcgc tcctgtctgc
     1201 tcactccgtc tctcatgtca aagccatact cccgcgcaac atcatgttgc agccttctga
     1261 ccagttcatg ttgcttaacc ggagtgtcca gccattccct gatgtcatgc ccgaccgttc
     1321 gcgcctgttc aagatggcgg gaatagtccg gttcagaccg tttttgcatg atgtcatgac
     1381 gctgggcatc atcaagccgt ccggcagttt caaaacccag atgcacttca ggacgtcgtt
     1441 caatgccctg ttctttcagc gtccggcagt caatgaagcc cctttcaaag ccatgctttc
     1501 tcatatgttc gttgtgcttc acctcccagc gttttcgcaa ttcccgcaac tgctcttttt
     1561 gctgagtggg agtcaggctt cctgaatcct ttttcgcacc tccccgctcg ggatacctgg
     1621 cgttatagcg ccggaaatac tgttccggtg tacgttcaat gccatcattc acacgctgac
     1681 tcatcatgat atgcgcatga ggctgttcgc ctccctcaat gctcgctttc ggattgtgaa
     1741 tggcaaaact ccatgcatgc cgttcgccag cttcctgacg tacaaaatcc tgcaccagtt
     1801 caaggcgctg ttccggtgtc agttcacggg gcagcgctat ctccagttcc cgataagtcg
     1861 aaccgtttgc acgttcaaac tggtcagccg cctgccagaa atgtgaggga ttatctcgcg
     1921 cccattccgg catgtttccg tgtgcggaat attccaaatc ctgacggtcg cggtatttct
     1981 ctttgcgctc gatgtaatcg gcgtggtttg cagcctgccc cttgccacca aatttaacgc
     2041 tgaggtgata ggttgccacg gtttcagccc tccgcaggag cgcactgttt ctcgacgaag
     2101 gagagaaaca tataagtgcg cttccttcta attttacgaa ttagcacgga agatacctcc
     2161 tgcacccgcc gaccgcaagc gatatactgc acgaccacaa cacaccgcaa aaaaacacca
     2221 gggagcacca cgaacatgcg catcagcaac atcgaatggc tgaagaaacg gatcggattc
     2281 atcaggaagc tcggagaaca gaccgcacga cagagacaga ttattgacct gctcgacaac
     2341 gaagcaggac tcacagaaca ggaacgcaaa ctcctccacg tactggcaac agcggaaaaa
     2401 aacgacttac aggcacagga gaacgaacga aaacaggcgg tccaaaatcg aatcgaggga
     2461 aaaaaacaac gacgagaacg caatcaccga ctctttctcg cggctgggct actgatcgaa
     2521 gcaggactgg tagacacaaa aacaggcgag ctatgctata aaaaagacag gatattacag
     2581 gaacttaagg aaattaagta cgatctggag acatccccaa acccagacgc gtaagtgcct
     2641 ccatccgtgt tccggttccc tggtgcttcc tcgctcattc gctcgctacg ctcggtcatg
     2701 agactgcggc gagcacgacc acctcaatca tgcggtaagc cgcaccattg ctgggctgag
     2761 aggagaaaac cgccggaaag cccgctgctc aaaaagacgc cgaaaggcgc tgttatctga
     2821 tataggcttg ttcatgtccg cgaatttaac atcccattaa caaaaaacgg ggggtagtgt
     2881 tgcttctttg ttaactaaca tttaattatt tgtttcttgg ttagccattc tccagaatta
     2941 tccatccagc gtcgaatagt ccggctgcta acaccaaccg ccactgcaat atcttccgtt
     3001 gacgctccca agatatacat atcaagcgcc ctacgacgtt tgtcgtcgtt agcagtccac
     3061 cgaacagcgg cgcttttttt ccctttgtcc gactgatttt ctgacgaatt ggccttcccg
     3121 cccttgcgac cgcgtgctgc ctgaatttct ggcgtgtgcg tatcagccac atactgtgcg
     3181 aaagtttccg gcgtgaagtt cctgtgcgtg tatttcgcaa tgctcttgcc aatagcccga
     3241 cattcagcca gtgaaagcgg aacgggaagc gatgcattgt acatttcgac acgctggatc
     3301 accgcttcaa gccactgtga gaacgctggc cagccctgac gaatcgccct gtaagcccat
     3361 ttgcgcgtca tttcgaacag gtggcagttt cgccccatcc cgtaatgttt atcgatgcta
     3421 cgacgctctg aggcgctcaa atcgagataa tctgccagtt catcgagggt ataggcgtcc
     3481 tcgcgccact ccatcacctg ccattccagg tggaacggat ttttgcaaat caggccgctg
     3541 tagttcacat cagcacaaag tttctcacac agcgaacgtt caaccgctgc ggcatatttc
     3601 agcgccttaa ccgaggcatc aggcgcggtt ctcacggcga tgttgagtgc gtagagcagg
     3661 tgagcgtgtc cgttcacagg atttttaacg gtgatgttcg gcgcgggggc gttccggtcg
     3721 ctccagtcaa tcgcagcccc ctcgcggtca acgtcaaaaa ccagccagaa ctgcgcatga
     3781 ggctggttct gctggatgta ccgcgcaaga agcgcacgcc ctttgccgga gatgcgaagg
     3841 ccgaaagcga gatcatccgt gtgataggga cgatggggta aattttcgtc gaagtattga
     3901 agcgcggcgc tcatgtgtta cgattctctc cgggttatgc gacctacacg ccctctgtat
     3961 ttcatgttga atcttgccgg atctggacat gatttcaggg gcgtttgttt ttcagccgct
     4021 tacactacac ccaacggcaa atcctgtcga tccttcccga aaaaccgatc catttaccat
     4081 aactcccgtt gtacgcaccc cttaaaacgc cctcagtcgc tttctgacgc aaaaaacgca
     4141 aaaagacaag aaaacaccag gccaaaccag aaaaacgcgc cagaatcgtt tttagagggc
     4201 tgcataacta tgcacgaaag cgatgcgcga tcgatttcga ctgttccgaa gggcgaacag
     4261 gtcaaaatga caagttttct cgccctgggt ggaaagttct gcacggggat tttagctctc
     4321 atctcccgca tggaattttt gtgacatttc aaaaaaaagc gcatcagaat cagcctgaca
     4381 cgctttgttt ttgtcaaaga ggatttcggg ttactgcgtt gctaatccgg tcacttcagc
     4441 tgttgatgac ggggatacag tcccgccctg aacatcccgg atatagtttg cctgacatgc
     4501 agccagaata atgactgcaa gaagcaataa aataatccct gttatttttt tcataacgac
     4561 tccttgttgt gaaagaatgc cagccattca tccataaaca accggcattc atattttagc
     4621 cctgtttaaa tcctggctta ccgttagcag ctcgccattc tttaatttct ttaacaatcc
     4681 cttcaggact atcttccctg tcatcgcgag gataataaat cagatctgaa ccatctgggt
     4741 gctcagttaa tcgctcaaac tctctcacta atttattgtc atcctcttca gtagcacctt
     4801 cagctctaca tatttttttt acaaactcca gaaattcagc ctcggtataa tcactaatac
     4861 tatgtttcag ttccattttt acttacctct atgaatatca atatgtcgct taggtgtggt
     4921 cactctgata ttatccatat catagacacc accatcctga ctgattggtt tatcatgatg
     4981 taattcaaag cgttccctac cacctacttg gtctttcttc cttgcaaaag gtgcttttcc
     5041 cttttgaatg ttcgtcttat tactgtcttt aaattgctta ctaagctcgg gatcttttga
     5101 cacttcttcc cagaatttct tccggaaatc gtcaaaactt ttaaattctt tatcacgcaa
     5161 cttatcagca atgcgatcag gaattggcgc tcctgaatct ttacccgcat catcaagcca
     5221 tttatcacca actggttttc ctttacccgt cgccttccct ggcttattcc gtttactctc
     5281 cttatctaat ttatccttag agtccttttc tttattttcc ttctgcttac ggcgttccag
     5341 cgcagcacct aacgcagcat cagcatcaga cttatctttt gcagcagcat caaatgcagc
     5401 cttcttatta tttacatccg tctgtgcccg ctgggcctta agccctgcca tttgccacat
     5461 tcggtgacca gcagccattg gttctcgggc aaatcgctcg aattgtttta tttcagcctt
     5521 tgcatcagca agagttttat tcgcagcatc aagttcactt ttacgagaat tataaacctg
     5581 aacagcttta gcctgtcgtt cctggtttct ggcaacatct ttattagcct gatccagttc
     5641 tgcgcgggcc tgttcataat tgcgttcagc cacttctaca ggatgtgtgt cattccattc
     5701 ctgctggagg cgattttcct catcctgacg ttgttttacc tgtgcagggg taagaacatc
     5761 tgtcactgat acataaatcg gcttctgccc actttctttc ggaaaacgga tcaccgcttc
     5821 atgtgaacca ccaccaaagg taaatcctgc aggaacggca gtccggcctt tatcctccgt
     5881 aataccacgg ggaagggttg ttgacaccgg aaggcctttg acagtgctga ctgtcagaga
     5941 agggacacca ggaaatgatg cgtgaaatac acctggagta cgtgttggtt tggcattcac
     6001 aacaggcaca ctcataggca cacctgcaac tacggcaata tgctgtcgtg tgtccttcac
     6061 aacatctgtc acacgtttcg tcacgctgac agttgcctgg tccagcggaa gtgtactgac
     6121 ctgaacattc gtcactgttt ctgccggtaa tgacgtcaca atctttgaca tcatattcgg
     6181 gtcatctttt gctatttcag atggcagaat gccgtaaagc gcaatacccc
//
