LOCUS       CP099162                5146 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB28-E3-C03 plasmid unnamed3, complete
            sequence.
ACCESSION   CP099162
VERSION     CP099162.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488598
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5146)
  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  JOURNAL   Unpublished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 5146)
  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-C03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 105x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:31:12
            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)                     :: 4,712
            CDSs (total)                      :: 4,591
            Genes (coding)                    :: 4,369
            CDSs (with protein)               :: 4,369
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 222
            CDSs (without protein)            :: 222
            Pseudo Genes (ambiguous residues) :: 0 of 222
            Pseudo Genes (frameshifted)       :: 61 of 222
            Pseudo Genes (incomplete)         :: 170 of 222
            Pseudo Genes (internal stop)      :: 40 of 222
            Pseudo Genes (multiple problems)  :: 40 of 222
            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..5146
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB28-E3-C03"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4731..5146,1..118)
                     /locus_tag="NFK34_23495"
     CDS             join(4731..5146,1..118)
                     /locus_tag="NFK34_23495"
                     /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="WFY47087.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISLDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(184..393)
                     /locus_tag="NFK34_23500"
     CDS             complement(184..393)
                     /locus_tag="NFK34_23500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFY47088.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLRKLPPDHTIPPDLTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            2126..3034
                     /locus_tag="NFK34_23505"
     CDS             2126..3034
                     /locus_tag="NFK34_23505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009440807.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WFY47089.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPEFSQWLDAVIQRVEMYNASLPVPLSP
                     AECRAIGRSIAKYTHRKFSPEGFSAVQAARGRKGGIAKGEAYEDKRFMALCMLENGYSQ
                     KAIAAMLNVHRNTIRNWAMHK"
                     /name="replication initiation protein"
     gene            complement(3227..3625)
                     /locus_tag="NFK34_23510"
     CDS             complement(3227..3625)
                     /locus_tag="NFK34_23510"
                     /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="WFY47085.1"
                     /translation="MRISNIEWLKKRIEFIRKLGKQTARQRQIIDLLDNEDRLTEQERK
                     LLHVLATAEKNDLQAQESERKQAIQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELRYKKDMLLQRLKPIKYDLDTCPNPDA"
                     /name="hypothetical protein"
     gene            3802..4728
                     /locus_tag="NFK34_23515"
     CDS             3802..4728
                     /locus_tag="NFK34_23515"
                     /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="WFY47086.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPDRGGAKKDSGNLT
                     PTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYYRHLEQARMVGHDIREWLDTPVKQHELVRRLQHDIAREHGFD
                     MRDGVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          2127..2854
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.61"
                     /coverage="88.0"
                     /evalue="0.0"
     Typing          3803..4725
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aatgaaaaca atgctcgaca ggaactacaa cgccacagcg gcggtgtatc agaaagttgt
       61 gacactggaa gataaactgg cggagaaacc tgtcacgggt aagagccgga aaaactgacg
      121 cgcttcgctt gtccaacgcc tcacggagcg cgaaaggatt tcgcgaaccg ttcaccgttt
      181 ttttcaatat gattctgtct gctttggtcg ataaagcagt cgatagtatt ccagccttcg
      241 tatatataac ggtacgtgct catcagtaag atctggcggt attgtgtgat cagggggaag
      301 ttttctcaga tactcacgaa atgcctggct tgatgccata aaatctacag tagcatcgat
      361 aatatgtggg gtgttttcac ctaattttgc catgatgata atccttatat tatcacggtt
      421 cgtgaatgat agggggtcac tattatttat gcgttagtaa accagaaaaa atcccccgtt
      481 ggcatagggg gatatgtaag gagaaataac ttcgcaggtg ttcttgtttg tataacgtga
      541 aaagactgca cgcaacttaa taagtctgcc gtacttactt tcagttttca acataaggtt
      601 tataacaatg tatggaatgg aagtgagctt taaggtttca gctctaaaaa ataaaatatt
      661 tattagttgg ttggttgttg ttcttgttct gtatgtatat aaacactatc gacatattat
      721 gaccgggaac attccttacc ccctctgcgc tctcagaggg tttttttttg tcattaatta
      781 ataatgaact gaaatgcagt tccgatacct ccatttgcac attatccctg acatatggta
      841 ccggaaccgc attaatttta tgttataaga gtttattttt aatgtccaga tggtttaatg
      901 gtatttatat gtaattagct gtatggatag tactgttttt attgtataac ttgttgtttt
      961 ttattgtttt tgtgtggtgt gctaatcttt aagttataaa aaaacccctt ggaacacagg
     1021 ggcaaaagta aggaaaacaa atggatgctc agtttgtgtg acactttaaa ctaatggaac
     1081 tatagagtgg aggttgttac agtcgctttt ataaaacagc aaccagtttt tttcaatagt
     1141 ctgatgatgg ttgtgacagt tttgtgatat tgttcaaaat gtttcttgtt gaatgtttgt
     1201 tttttggtct attggtgtct ggttttattt tttctgctat tacatatcaa gaaatgtgat
     1261 tggtgtagca agagtggaat gcgatgtgga taaactaatt ggttgtcgaa tctaatttac
     1321 ttagaaaact acacttgttt ttgtgtatga atttagtgaa tttgtctgtc tatgtgtttt
     1381 cgtgcattta taaatccttc gtcaggatct taaatttagt gttgaatatg tagggcctgt
     1441 acggtaatta ttatttagcg tagctacttc atcgttgttc gaacacaacc aacaacctgt
     1501 aattgttgtt tctcttggtt ccccactttt gtggggtttt ttatctcttc cgtgcatcgt
     1561 aaagcgcgga ctccttctgg aaaggttgtt ttagggcatc actgaggcat tttttgcgtt
     1621 tgtgaatatt gagcatccga taactaaaat atttcccata gactctgatt cttgccaccg
     1681 accccaggtc ggtttttttt gtcctggcga gatgtgaagt ttggaaacag gaaaccccgt
     1741 cagagcgcca cgcaccaggg gagaaaactt gtcgttttga gccgttcggt gttcagaacg
     1801 cacgaaaccg atcgcacatc gctttcgtgc atagttatgc aacgccctga aaacgattct
     1861 gacgcatttt tctggttcag cctggtgttt ccttgtcttt ttgcgttttt tgcgtcagaa
     1921 agcgattgag ggcgttttat ggggtgcgta caacgggagt tatggtaaat ggatcggatt
     1981 tgcgggaagg ctcgacaggt tttgtcgttg ggggtagtgt aagcgactga aaaacaaacg
     2041 cccctgaaat tcgtgtctat ccgccaagac tttcacgaaa atacaggggc gatgtcggtc
     2101 gataacctgg aaggaatcgt aacacatgag cgccgcgctt caatacttcg aagaaaattt
     2161 accccaccgt ccctatcaca cggatgatct cgctttcggc cttcgtatct ccggcaaagg
     2221 gcgcgcgctt cttgcacggt atatccagca gaaccagcct catgcacagt tctggctggt
     2281 ttttgacgtt gaccgcgagg gggctgcgat tgactggagc gaccggaacg ctcccgcgcc
     2341 gaacatcacc gttaaaaatc ctgtgaacgg acacgctcac ctgctctacg cactcaacat
     2401 cgccgtgaga accgcgcctg atgcctcggt taaggcgctg aaatatgccg cagcggttga
     2461 acgttcgctg tgtgagaaac tttgtgcgga tgtgaactac agcggcctga tttgcaaaaa
     2521 tccgttccac ctggaatggc tggtgatgga gtggcgcgag gaagcctata ccctcgatga
     2581 actggctgat tatctcgatt tgagcgcctc agcgcgccgt agcatcgata aacattacgg
     2641 gatggggcga aactgccacc tgttcgaaat gacgcgcaaa tgggcttaca gggcgattcg
     2701 tcagggctgg cctgaattct cacagtggct tgatgccgtg attcagcgtg tcgaaatgta
     2761 caacgcatcg cttcctgttc cgctttcacc agctgaatgc cgggctattg gcaggagcat
     2821 tgcgaaatac acgcatagaa aattctcgcc agaagggttt tccgctgtac aggccgcacg
     2881 cggtcgcaag ggggggatcg ctaaaggcga agcctacgag gacaagcgtt tcatggcgtt
     2941 atgtatgctg gagaatggat attctcagaa agctattgcg gcgatgctga atgtacatcg
     3001 taatacgatc cgtaattggg caatgcacaa atagccttat cagataacag cgcctttccg
     3061 gcggtttttt gagcagctat tttttgggtg gtttctgctt gtcagcccag caatggtgcg
     3121 gcttttcgct tgattgaggt ggtagtgctc gccgcagtct catgaccgag cgtagcgagc
     3181 gaatgagcga ggaagcacca gggcaccgga acgtgaacgg gaacacttac gcgtctgggt
     3241 ttgggcatgt gtctagatcg tacttaatgg gtttaagtct ttgtaataac atgtcttttt
     3301 tatagcgtag ctcgcctgtt tttgtgtcca ccagtcctgc ttcgatcagt agtcctgccg
     3361 cgagaaagag ccggtgattg cgttcccgtc gttgtttctt cccctcgatt cgtttctgga
     3421 tcgcctgttt tcgttcgctc tcctgtgcct gtaagtcgtt tttttcggct gttgctagta
     3481 cgtggagaag tttgcgttcc tgttctgtga gtctgtcctc gttgtcgagc aggtcaatga
     3541 tctgtctctg tcgtgcggtc tgttttccga gcttcctgat gaactcgatc cgtttcttca
     3601 gccattcgat gttgctgatg cgcatgttgg tggtgctccc tggtgttttt ttgcggtgtg
     3661 ttgtggtcgt gcagtatatc gcttgcggtc ggtgggtgca ggggttacct tccgtactaa
     3721 ttcgaaaaat tagaaggaag cgcacttata tgtttctctc cttcgttgag aaacagtgcg
     3781 ctcctgcgga gggctgaaac cgtggcgacc tatcacctca gcgttaaatt tggtggcaag
     3841 ggacaggctg ccaaccatgc cgattacatc gagcgcaaag agaaataccg cgaccgtcaa
     3901 gatttggaat attccgcaca cggaaacatg ccggaatggg ccagggataa tccttcccat
     3961 ttctggcagg cggctgacca gtttgaacgt gcgaacggtt cgacctatag ggaacttgaa
     4021 attgcattac cccgtgaact gacaccggaa cagcgccttg aactggtgca ggattttgta
     4081 cgtcaggaag ctggcgaacg gcacgcctgg agttttgcca ttcacaatcc gaaagcgagc
     4141 attgacggcg gcgaacagcc tcatgcacat atcatgatga gtcagcgtgt gaatgatggc
     4201 attgaacgta caccggaaca gtatttccgg cgctataacg ccaggtatcc cgaccgggga
     4261 ggtgcgaaaa aggattccgg aaacctgacc cccactcagc aaaaagagca gttgcgggaa
     4321 ttgcgaaaac gctgggaggt gaagcacaac gaacatatga gaaagcatgg ctttgaaagg
     4381 ggcttcattg actgccggac gctgaaagaa cagggcattg aacgacgtcc cgaagtgcat
     4441 ctgggttttg aagctgccgg acgacttgat gatgcccagc gtcatgacat catgcaaaaa
     4501 cggtctgaac cggactatta ccgccatctt gaacaggcgc gaatggtcgg gcatgacatc
     4561 agggaatggc tggatacacc ggttaagcaa catgaactgg tcagaaggct gcaacatgat
     4621 attgcgcggg aacatggctt tgacatgaga gacggagtga gcagacagaa ccgaactgaa
     4681 cctgaacggg ttaaatcacc gtcacgtgga ttttctatgg gattctgaac atggccagca
     4741 cagaagaaaa attactcacg ctcctgttat cggtggagca tctgcaacat accgcaatgg
     4801 agcaacagaa agctgttgct gattctctgg ctgtggcaag ggaaacgctt cgcggatatc
     4861 gggatatttc tgacggtgtg gcaaaacagg tcagggatga agtcagaaat gaggtgcaga
     4921 agctggacgt agcagggctg ataggtgagc gcatcagcct ggattttcag cggctggaag
     4981 agtcagtcgc aaacatgaag gcaaacgcgg atgccctgaa cagggatatt gcgacaattc
     5041 acagcaatat cgtgcaggaa tacaacaccc ttaaagggta tagctggaaa tggctgggtg
     5101 gtgtgtcagt ggcttttctg gttatgttct gtgtgctcgg atgggg
//
