LOCUS       CP099277                3906 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB05-SO-C07 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099277
VERSION     CP099277.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488508
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3906)
  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  JOURNAL   Unpublished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 3906)
  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                     :: RHB05-SO-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 114x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 19:52:34
            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)                     :: 4,543
            CDSs (total)                      :: 4,427
            Genes (coding)                    :: 4,350
            CDSs (with protein)               :: 4,350
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 77
            CDSs (without protein)            :: 77
            Pseudo Genes (ambiguous residues) :: 0 of 77
            Pseudo Genes (frameshifted)       :: 24 of 77
            Pseudo Genes (incomplete)         :: 49 of 77
            Pseudo Genes (internal stop)      :: 15 of 77
            Pseudo Genes (multiple problems)  :: 10 of 77
            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..3906
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB05-SO-C07"
                     /isolation_source="Pooled soil sample collected from floor
                     of sheep farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2955..3906,1..599))
                     /locus_tag="NFJ44_22680"
     CDS             complement(join(2955..3906,1..599))
                     /locus_tag="NFJ44_22680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /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="WFV70115.1"
                     /translation="MASYHCTVKAGAKGSALKHADYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARHGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGEQIVAIQERRNAERELKTARDAANAIQPEQEQKQKIKAVEPVRSARSPELLLQYR
                     KVMKTVIQGEERLARLGDANPNALKEHKLLQNAKAKKDSLSEWSRRIYEGARYLDKLGR
                     NVVSAQRELRELQEQRNALNGIRGLFRGADKREIDARILEQKSVLETAEHERNEFRNKL
                     QQAESEWDKENAAFKRTEGYKYVGDLDRYREREILAAASLENTRQKVAEEVSVARSQML
                     SLEPELSISGDEKAQMRHELLAEMAQERQQQEEKALRIQRSWAREASRSNERDQDMER"
                     /name="MobA/MobL family protein"
     gene            771..1217
                     /locus_tag="NFJ44_22685"
     CDS             771..1217
                     /locus_tag="NFJ44_22685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WFV70116.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWEKRGKELLTKDCA"
                     /name="conjugal transfer protein TraD"
     gene            complement(1478..2497)
                     /locus_tag="NFJ44_22690"
     CDS             complement(1478..2497)
                     /locus_tag="NFJ44_22690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001271373.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WFV70117.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPVFSQWLDAVIQRVEMYNASLPVPLSP
                     AECRAIGRSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKF"
                     /name="replication initiation protein"
     Typing          complement(1723..2497)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(4..599)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.492"
                     /coverage="99.0"
                     /evalue="7.48e-131"
     Typing          complement(2959..3905)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.252"
                     /coverage="99.0"
                     /evalue="7.72e-164"
ORIGIN
        1 tgatctacgc gcgactcgtg accgtgtcgc gcaaggtgct cattctgcac atctgcccag
       61 cgggaacgca gcgcaacaag ggcggctttt cgctctccgg ctgtctgggg aatactcgct
      121 ttttttgcgc ctccccgctc tggtgatttg ctgttggcac gtttaaaaaa ttgctgcgga
      181 tcgcgttcaa taccatcatt aatccgctcg caaaacatga tatgcgcgtg tggctgttcc
      241 tttccgtcga ttgcacctgg cggattgtgg atcgcgtact ggtaggcatg gcgatcacca
      301 agttcctttt gcacgaaatc ttcaacaagt tctatccgtt gttcgcgtgt cagttcacgc
      361 ggtaacgcga tctcaatttc acggtatgca gtcccgtttt ttcgttcaaa ttcatctgcg
      421 gctttccata gctctgcggg atttttcttc gcccatgatg gcatgttacc ggatgacgaa
      481 aattccagat cctcccgcga tttgtagctc ttatattcgc cggatctgga aatgtaatca
      541 gcatgtttta aggcactgcc ttttgctcca gctttgacag tacaatggta gcttgccatc
      601 tgccttttag ccctccgcag gagcgcacag tttctcgacg aaggagagaa actactaagt
      661 gcgcatccct gaattaatca gggatgattt tacggtcaca cacacatgct gacaaggtga
      721 tattatgcac aataacaact cacattaacg gcaaaagtgc agaggaaaag atgacaaatc
      781 gtgaagagtg gttaagtgca aaaattgcct acatcaacgg actgaaatca ccgtcagagc
      841 aacagagatt acttgtgtta ctggcagaga aaaaaaaccg aacaacgacg gatgaaaaaa
      901 cgttgtccgc actgatacga gcagaaaaaa ccgcagagaa agcagccgca gcaaaagcca
      961 gagtaacggc aatcatagcg gcagaacgga aggcagccgc aagggcggaa cgaaaggcgc
     1021 gggatcatga actctacaag gccgcaggcc tcatgattgt ggcaggactg gtggacagca
     1081 aaaccggaaa accaaagttt agtgctgccg aactggtagg cgcactcgca ggaatcgcag
     1141 agctaccgcg caaccatcca aaatggcagg aatgggaaaa acgcgggaaa gagctactca
     1201 ccaaagactg tgcgtaagag cctccgttca cgttccggtt ccctggtgct tcctcgctca
     1261 ttcgctcgct acgctcggtc atgagactgc ggcgagcacg accacctcaa tcatgcggta
     1321 agcctcacca ttgcggggct gaaaggagaa aaccgccgga aagcccgctg ctcaaaaaga
     1381 cgccgaaagg cgctgttatc tgatataggc ttgttcatgt ccgcaaattt aaccatccat
     1441 taacaaaaat agggggtgat tgtcatttct tcgttaatta aaatttaatt atttgtttct
     1501 tggttagcca ttctccagaa ttatccatcc agcgtcgaat agtccggctg ctaacaccaa
     1561 ccgccactgc aatatcttcc gttgacgctc ccaagatata catatcaagc gccctacgac
     1621 gtttgtcgtc gttagcagtc caccgaacag cggcgctttt tttccctttg tccgactgat
     1681 tttctgacga attggccttc ccgcccttgc gaccgcgtgc tgcctgaatt tctggcgtgt
     1741 gcgtatcagc cacatactgt gcgaaagttt ccggcgtgaa gttcctgtgc gtgtatttcg
     1801 caatgctcct gccaatagcc cgacattcag ccggagaaag cggaacggga agtgatgcgt
     1861 tgtacatttc gacacgctgg atcacggcat caagccattg tgagaataca ggccagccct
     1921 gacgaatcgc cctgtaagcc catttgcgcg tcatttcgaa caggtggcag tttcgcccca
     1981 tcccgtaatg tttatcgatg ctacgacgct ctgaggcgct caaatcgaga taatctgcca
     2041 gttcatcgag ggtataggcg tcctcgcgcc actccatcac ctgccattcc aggtggaacg
     2101 gatttttgca aatcaggccg ctgtagttca catcagcaca aagtttctca cacagcgaac
     2161 gttcaaccgc tgcggcatat ttcagcgcct taaccgaggc atcaggcgcg gttctcacgg
     2221 cgatgttgag tgcgtagagc aggtgagcgt gtccgttcac aggattttta acggtgatgt
     2281 tcggcgcggg ggcgttccgg tcgctccagt caatcgcagc cccctcgcgg tcaacgtcaa
     2341 aaaccagcca gaactgcgca tgaggctgat tctgctggat gtagcgagca agaagcgcac
     2401 gccctttgcc ggagatgcga agaccaaaag cgagatcatc cgtgtgatag ggacggtgag
     2461 gtaaattttc gtcgaagtat tgaagcgcgg cgctcatgtg ttacgattcc ctccgggtta
     2521 tgcgacctac acgccctctg tatttcatgt tgaatcttgg cggatctgga catgatttca
     2581 ggggcgtttg tttttcagtc gcttacacta cccccaacga caaaacctgt cgagccttcc
     2641 agcaaatccg atccatttac cataactccc gttgtgcgta ccccctaaaa cgccctcaat
     2701 cgctttctgg cgcaaaaaac gcaaaaagac agggaaacac caggcaaaac cagaaaaacg
     2761 cgtcagaatc gttttcatga gcctgcataa ctattcacga aagcaatgcg cgatctgttt
     2821 cgagcgttca gaagggcgaa cgggtcaaaa cagcaaactt tctcatcaga aaacggtgaa
     2881 cgggacgcgg aattttttcg cgttccgtga aacgttggcg gggttcgggg cgcagtcccg
     2941 atattgctac attttcaacg ctccatatct tgatcacgtt cgttactacg tgatgcctcc
     3001 ctggcccagg aacgctgtat acgcagtgct ttttcctcct gttgctgccg ttcctgcgcc
     3061 atttctgcca gtaactcatg tcgcatttga gctttttcat ctccagatat actgagttca
     3121 ggctccagag ataacatctg gctacgggca acggatactt cttcagcaac cttttgcctg
     3181 gtattctcta aagatgccgc ggccagaatc tcacgttctc tgtacctgtc cagatcccca
     3241 acgtacttat atccctcggt acgcttaaaa gcagcgtttt ctttgtccca ctcggattcg
     3301 gcttgctgta gcttgttcct gaattcattc ctttcatgtt cagcggtttc cagcacactt
     3361 ttttgctcca gaatacgcgc atcaatctcc cttttgtcag ccccccgaaa caggccacga
     3421 atcccattca aagcattgcg ttgttcctgt agctcccgca gctccctttg tgcggaaaca
     3481 acattacgcc ccagtttgtc taaataccgt gccccttcat atattcgcct gctccattcg
     3541 gaaagagagt cttttttagc tttcgcattc tgaagcagct tatgttcttt gagcgcattg
     3601 ggattggcat cccctaaacg agcaagcctt tcctctccct gaatgaccgt tttcataacc
     3661 ttgcggtact gaagcaataa ctccggtgaa cgggctgaac gaacaggctc aactgccttg
     3721 attttttgct tttgctcctg ttctggctga atggcatttg cggcatctct ggctgtcttg
     3781 agttcccgct cggcattcct ccgttcctgg attgcaacaa tctgctcacc attcagactg
     3841 gcggcctgaa cggggccaag atgaacttcc ggcgtgcgat tgataccctg ttctttcagc
     3901 gaacga
//
