LOCUS       CP099257                3257 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB08-SO-C08 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099257
VERSION     CP099257.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488520
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3257)
  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  JOURNAL   Unpublished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 3257)
  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                     :: RHB08-SO-C08
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 124x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 20:04:28
            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)                     :: 4,681
            CDSs (total)                      :: 4,564
            Genes (coding)                    :: 4,452
            CDSs (with protein)               :: 4,452
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 112
            CDSs (without protein)            :: 112
            Pseudo Genes (ambiguous residues) :: 0 of 112
            Pseudo Genes (frameshifted)       :: 42 of 112
            Pseudo Genes (incomplete)         :: 68 of 112
            Pseudo Genes (internal stop)      :: 32 of 112
            Pseudo Genes (multiple problems)  :: 26 of 112
            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..3257
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB08-SO-C08"
                     /isolation_source="Pooled soil sample collected from floor
                     of cattle farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3133..3257,1..157)
                     /locus_tag="NFJ56_23395"
     CDS             join(3133..3257,1..157)
                     /locus_tag="NFJ56_23395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586174.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WFW11093.1"
                     /translation="MIINIKHKGLRKFAETGNNAGIPQQFTQRLKLILTALSTATNLQD
                     MMDLKALRCHPLKGDRQGEYSLEVNGNWRVVFKLEEPNVFDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1301..1495
                     /locus_tag="NFJ56_23400"
     CDS             1301..1495
                     /locus_tag="NFJ56_23400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="WFW11094.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2492..2788)
                     /locus_tag="NFJ56_23405"
     CDS             complement(2492..2788)
                     /locus_tag="NFJ56_23405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609270.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003677 - DNA binding [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WFW11092.1"
                     /translation="MINLVDPVHPGVFIREMFMEPFEISAADLSEKLHVSPSTLSRVLN
                     GKADLSVEMALRLSRVLGRSAESWINMQTQYSLNASRKSPNVIKELDELVPIF"
                     /name="HigA family addiction module antitoxin"
     Typing          complement(787..1042)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(1167..1265)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1569..1651)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.81"
                     /coverage="100.0"
                     /evalue="1.76e-34"
     Typing          1664..2218
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.614"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cttgcaggat atgatggatt taaaggcatt gcgctgccat ccattgaagg gagaccgtca
       61 aggagagtat tcgttagagg tcaatggaaa ctggcgcgta gtgtttaagc tcgaagaacc
      121 taacgtcttt gacgtggatc tcgaggatta tcactaagaa ggtccttaaa gcatcaaagt
      181 gacagtatcg atgctttagg gtctcataaa aaagcaaaac ctcggggtaa gttatatgaa
      241 gtattttctg taccagatag tccctatagc agccatcatt tgcgcagcaa ttctagcgct
      301 aaaaggtatc aatggctggg ggtggttctt aactgttggg ttcctgcttg caggggcaga
      361 tacagtaaag gctcagttat ctaagtagta ataaacacta tcaatagtgg ttggataatt
      421 gccaaaaaag cctctatctg ttctgaaaca gacaacaagg aaaaatcggt gtaagccacc
      481 tccataagag gtggtattga tatcaacata gataaaacca tcccgtaaat cacagcattt
      541 accataacgt cgcattacgc gcaccgctaa aacgcgctga acgcgattct gccgcgaaca
      601 ccgcaaaaag agatgtttta ccaagcgaaa accggaaaaa tgcgtcagga tcgctttcag
      661 ctcactgcat agctatgcat gaaagtgaat ggcgatcggt ttgggcgcat acggtgccca
      721 tgagacacat tttcggacat tttcagttcg tgaatccctg actcattgct acatatctga
      781 acagacaccc ctagcagcgc ccccaggggc gtcctgtaaa aaaacacacc gcgccgctag
      841 cagcacccct aatataaaat gatgtttttt atgaaaatag tcagtaccac ccctaaaaag
      901 cggtgttggc gcagctacaa caccgcgccg acaccgcttt tttaaatatc acaaagagag
      961 caagaagaac taatttgtca taactctcta tttataaaga aaaatcagca aaaaattgtt
     1021 tttgcgtggg gtgtgggcat ttcaggcatg agaacagact cgcgtttttc cggagtatca
     1081 gcggaattat tgattaagaa acactcgacg cagagcgaaa ttttatgcaa cagcggctgc
     1141 actgcacagg gattatttat cagttgatat gctgtgccat gatacgtcct aaaaaaacag
     1201 gacaggatgt gcaattgtaa taccgtcgcc cgcaacgtct tacaattacc acctggtcag
     1261 ggtccacccg acacccggta ctgacggaga acaacggaag gtgaacaaac agcaacaaac
     1321 tgcgctgaat atggcgcgat ttatcaaaag ccagagcctg acactgcttg aaaaactgga
     1381 tgctctggat gccgacgaac aggcggccat gtgcgaacga ctgcacgaac tcgcggaaga
     1441 actccagaac agcatccagg ttcgctttga gaccgaaagt gaaacaggaa cataacgaag
     1501 ctgacggagg cgctcacggc ttgtccgcga gcgttttcgg cagcagacaa gcccgccagg
     1561 gcgcgtcagc gggtgtcggg gcgaagccct gacccagtca cgtagcgata gcggagtgta
     1621 tactggctta actatgcgac atcagtgcag attgtatgaa aagtgcccca tgccgggtgt
     1681 gaaattccgc acagatgcgt aaggagaaaa tgcgcgtcca ggcgcttttc cgcttcctcg
     1741 ctcactgact cgctacgctc ggtcgttcgg ctgcggcgag cggtactgac ttacacaaaa
     1801 acggcagcac ggttatccac agaatcaggg gataaggccg gaaagaacat gtgagcaaaa
     1861 gaccaagaac aggaagaagg ccgcgccgca ggcgtttttc cataggctcc gcccccctga
     1921 cgagcatcac agaaatcgac gctcaagtca gaggtggcga aacccgacag gacttaaaga
     1981 taccagacgt ttccccctgg tggctccctc gtgcgctctc ctgttccgac cctgccgctt
     2041 accggatacc tgtccgcctt tctcccttcg ggaagcgtgg cgctttctca tagctcacgc
     2101 tgtaggtatc tcggttcagt gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc
     2161 cccgttcagc ccgaccgctg cgccttatcc ggtaactatc atcttgagtc caacccggaa
     2221 agacatgcaa aacaccattg gcagcagcca ctggtaactg atttagagga gttagtcttg
     2281 aagttatgcg ccagttaagg ctaaactgaa agaacaagtt ttggtgactg cgctcctcca
     2341 agccagttac cctggttcag aaacttgccg gttactgaac cttcgaaaaa accaccttgc
     2401 cgggtggttt tttcgtttac gagaaacgat acgatccagt tgcctgagag tcaagacaga
     2461 aaaaggccgc atatagcggc cttttctttt ctcaaaatat aggaaccaat tcatctaatt
     2521 ccttaatgac attaggtgac ttcctgctcg cgttaagact gtattgagtc tgcatgttta
     2581 tccacgactc ggcactgcga ccaagaactc gagaaagcct taatgccatc tcaacactta
     2641 aatcagcttt tccattcagc actctactta gagtggaagg tgatacatgc agtttttcag
     2701 acaggtccgc ggctgatatt tcaaacggtt ccataaacat ctcacggata aaaacccctg
     2761 gatgtactgg atcgacaaga ttaatcatac cttcctctga agcctatatt agttttaaaa
     2821 agataggcct attgcgtttt cagattgcgc attgcgcata acgcaactca ttgttgacta
     2881 aaaaaaagaa tgacattatg atgcacattg gtgcgtctaa tcattcctta tgatgtgggt
     2941 acttgatgtg aaattcaagg ccccggcatt gtacagcgca tcaaaccaat gtcaacagat
     3001 taaaatgcga cttggttaag taaaacctac gtcatttatt caaatagagc aaggggtttg
     3061 caatggaaat acggatgaac cggaaaaata aactgcgatg tttctatcta aacaaatatg
     3121 ggatggtgat taatgatcat aaatatcaag cataaaggtt tgcgtaagtt tgccgaaaca
     3181 ggtaacaacg caggaattcc gcaacagttt actcaacgtc tgaagctgat cctaacagcc
     3241 ttaagcacag cgacgaa
//
