LOCUS       CP099119                4076 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB34-SO-C08 plasmid unnamed1, complete
            sequence.
ACCESSION   CP099119
VERSION     CP099119.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488617
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4076)
  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  JOURNAL   Unpublished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 4076)
  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                     :: RHB34-SO-C08
            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 17:55:41
            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)                     :: 4,577
            CDSs (total)                      :: 4,453
            Genes (coding)                    :: 4,327
            CDSs (with protein)               :: 4,327
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 46 of 126
            Pseudo Genes (incomplete)         :: 74 of 126
            Pseudo Genes (internal stop)      :: 26 of 126
            Pseudo Genes (multiple problems)  :: 18 of 126
            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..4076
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB34-SO-C08"
                     /isolation_source="Pooled soil sample collected from floor
                     of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed1"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            491..1609
                     /gene="wzz(fepE)"
                     /locus_tag="NFK53_22870"
     CDS             491..1609
                     /gene="wzz(fepE)"
                     /locus_tag="NFK53_22870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243311.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0016020 - membrane [Evidence IEA]; GO_process:
                     GO:0009103 - lipopolysaccharide biosynthetic process
                     [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WFZ12641.1"
                     /translation="MFSMKISKISDEHFSNYNMLPNGNEEIDLFDLIRVLWAAKIKIVG
                     VILFFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLGVDFDINRDSAF
                     ALFIKKFQSVNSLNEYMRSSPYVMEIIKKKNISALELHRAIVGLSENMKSVDDNASKKN
                     DKSSLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNELEVKTNVEKEIL
                     ALDEIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDGIATK
                     LNIKKSIKDVSELSGELRNRQYIVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGPSNAI
                     IVILSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="wzz(fepE)"
     gene            2547..2696
                     /locus_tag="NFK53_22875"
     CDS             2547..2696
                     /locus_tag="NFK53_22875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFZ12638.1"
                     /translation="MPSEYDEQPDATDALFPGEYDLFDLMAHVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            3165..3356
                     /locus_tag="NFK53_22880"
     CDS             3165..3356
                     /locus_tag="NFK53_22880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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="WFZ12639.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCETLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3356..3757
                     /locus_tag="NFK53_22885"
     CDS             3356..3757
                     /locus_tag="NFK53_22885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WFZ12640.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVTRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2339..2554
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="83.71"
                     /coverage="100.0"
                     /evalue="1.62e-49"
     Typing          complement(1830..2358)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.545"
                     /coverage="89.0"
                     /evalue="1.2e-144"
ORIGIN
        1 gtttttttga cctttacgac tctagagtca agtcacgagt cgaatcgccg gtgaattgtc
       61 tggtgagtcg tccggcgact tgccataacg tgattgccgg ccgtcgacga acccgattcc
      121 tgatcgtgct gaaaaccggt tttccggctg cgccggcaac gcttcacggc cacgcaataa
      181 attgcgtccc cgttcaccgt tttcggatag gaagaacgcc ggaaacagga cttaccctgg
      241 ctgaatggcg tgaattttcg cgctatgcac ttgcgtgcat actcatgcat gccgtaaaaa
      301 cagagcctgc gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt accggtttcc
      361 cgtcagaaac gccctgaggc cgttttagtg gtgcgtacaa ttaaaatgtt atgttaaatg
      421 tctgctgaat gatttttagg atttttccta acatatgata gaataaaaaa accatatgtt
      481 aatatattgt attttttcaa tgaaaatctc aaagatatct gacgaacatt tttctaatta
      541 caacatgttg ccgaatggta atgaagaaat tgaccttttt gacttgatta gagttttatg
      601 ggcagcaaaa ataaaaattg ttggggtgat tctatttttt gcttgtattg gctttcttgt
      661 ttcttttgtt ttgccacaaa aatggactag ttctgctgtg gttactcctg ctgagtctgt
      721 tcaatggagt gaattaaata aggagctttc caagcttcat gttctgggag tggattttga
      781 tatcaatcgt gatagcgcat ttgctctgtt tattaagaaa tttcagtccg ttaattcgtt
      841 gaatgagtat atgagatcat ctccttatgt tatggagata attaaaaaga agaacattag
      901 cgctctcgaa ctgcatcgtg caattgttgg gttgagtgaa aatatgaagt cggttgatga
      961 taatgccagt aagaaaaacg acaagtcatc attgtatgta tcatggactc tgagttttac
     1021 tgctccaaca agtaaagaag ctcacgatgt gttgtctggg tatattaatt atgtttcttc
     1081 ccttgttgta agggatttga tggaagatat aagaaatgaa ctagaagtta aaactaatgt
     1141 tgaaaaagaa attcttgcac tggatgagat aaaaattaga aaccagctga atgcagatat
     1201 tcgacgcctc aattattcac tggaggttgc taatgcggct ggaataaaaa aacctgtata
     1261 cagcaatggt cagattatga aggatgatcc agattttcct gtggctctcg gttctgatgg
     1321 tatagcaact aaattgaaca tcaaaaaatc aatcaaggat gtttcggaat tgagtgggga
     1381 gttgcgaaat cgtcaatata ttgtgaatca attggttgtg gcgaaagtgg gggatgttga
     1441 ttttatgccg tttcagtatc aattgagccc aacgttaccg gtcagaaagg atgggccaag
     1501 taatgccata attgtaattc tttcttctgt cattggaggg atgcttgcat gtggctatat
     1561 acttttacgt catgccatgg aggccagaaa gatgagtgtg attgagtaaa agttgtgctg
     1621 atgcatcatt ttataagcaa cttttataaa aagttcaaag gatcttcttg agatcattcc
     1681 cttacagccg tagtcttcta ctctagaaaa cgaaaaaacc acctggggag gtggtttttc
     1741 gaaggttcag taagttgggg aacttctgaa ccgtggtaac agtcttgtgc gagacatgtc
     1801 accaaatctg tccttctagt gtagcctcag taaggctgcc acttcaagaa ctctcaatac
     1861 atctctcgca catcctgttt accagtggcc gctgccaatg gcgttaagtc gtgtcttacc
     1921 gggttggact caagacgata gttaccggat aaggcgcagc ggtcgggctg aacggggggt
     1981 tcttgcatac agcccagctt ggagcgaact gtctaaacgg aacggggcgt ggtgatttag
     2041 gtaaagcttc caccactaca cggatgccgc aggacgggaa caggagagcg caagagggag
     2101 ccaccagggg gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca ccactgattt
     2161 gagcgtcaga tttcgtgatg cttgtcaggg gggcggagcc tatggaaaaa cggctttgcc
     2221 gcggccttat cgtatccctg ttaagtttct tcctggcatc caccaggaaa taaatttccg
     2281 ccccattcgt aagcctgcac cgctcgccgc agccgaacga ccgagcgcag cgagtcagtg
     2341 agcgaggaag cggaatatca cctgaaccag catcttctcc tgacgccggt aagcctcatt
     2401 tcactcctgc cacatgaagc actttggcaa atcaccactt cggtttaaaa tatttagcca
     2461 gtatgcactc cgctagcgct cacgtgactg gttcagggct gcgccccgaa acccgctaac
     2521 acccctcagc tactggatat cacaccatgc catctgagta tgatgaacaa ccggatgcga
     2581 ctgatgctct gtttcccggc gaatatgacc tttttgactt aatggctcat gttactgaag
     2641 agaacctgca cgccccggtg gattctggcc cgcctgtcgg ccgggaagcg ttatagcttt
     2701 ttcgctggcc agcgtacatg taatacgctg gtattacatg ttatttgttt attttcatgt
     2761 tgttacagat gattgtaata cgttgcgtat tacgctaata cacgaaataa ctccattttt
     2821 ttcatttaat tcatgcagtt gcgataaaaa tcgcggctgc gttaggtgta tgaccattta
     2881 aggggcaaaa aattatcatt ctggctgggt gatctgcgca ggttaaggat catcggcgac
     2941 gaaaaagcgt ctttaactgc ttcgttcatg caagcatgaa cggattattt ttccagacta
     3001 caggaagact acaaaagttg atgatttaat cctgcgtttt agtgcgatga ctacagataa
     3061 actacaaaat aactacagga taacctcaga tccgttctct gaaccattcg tacatccgac
     3121 ccccttaccg gtttatactg agcactgatg ctctgagggc ccttatgacg aaacaacaga
     3181 aaacagcgct gaacatggct aaattcatcc agaatcagtc tctgctcctg ctggagaagc
     3241 ttaacgagct tgatctcgat gttgaggcgg acctttgtga gacactccac gatgatgcgg
     3301 agcatctttt ccgtacactg tcctcgagat tggatgcatt acaggatggt aactgatggc
     3361 cagagtatct attagtgagg ctgcccgact gacgggtaag agtagaacaa cactgcacag
     3421 gttaattaaa gcaggtgacc tgtccacctg tagcggtgaa cgcaatgcaa aaatggtaga
     3481 tacttcagag cttttacgtg tctttggtcc ctttgaacaa ccgaagggtg aacaccattc
     3541 tggacaggtc tctgaacagc gtgatacagc ctctgctgac cagagtgaac aggtgactcg
     3601 tcatctgaaa caggagattg aacacctgaa caccttactt ttgtccaagg attcgcacat
     3661 tgacagcctg aaacaggcta tgctccttct tgaaaatcac caggcaaaat taactgaatc
     3721 cccggcgcca tggtggaaat tctggaaaaa atcctgaccc cgtcatgctt cagttttcct
     3781 ctccggccat cccggggagt tcctgaacct tcccaaaaat cgtcagatct ctgaacgctc
     3841 ctcaccacta aaaataccca caccctacgc aaaattaaaa ttttgaagat aactcattaa
     3901 tatcagttag ttgtgggtta ttaaattacg cagtattact ttctgtaagg tgaatccaag
     3961 tcgtcggcga ttcgtgtacg acttgctgac gactcgtcat agagtcatcg acgactcact
     4021 taagactatc agtaacttat gatgacttga ctctagagtt gaatcgtcat tttggt
//
