LOCUS       CP099083                4147 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB43-C19 plasmid unnamed5, complete
            sequence.
ACCESSION   CP099083
VERSION     CP099083.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488644
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4147)
  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  JOURNAL   Unpublished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 4147)
  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                     :: RHB43-C19
            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 18:55:57
            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)                     :: 5,476
            CDSs (total)                      :: 5,345
            Genes (coding)                    :: 5,093
            CDSs (with protein)               :: 5,093
            Genes (RNA)                       :: 131
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 99
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 252
            CDSs (without protein)            :: 252
            Pseudo Genes (ambiguous residues) :: 0 of 252
            Pseudo Genes (frameshifted)       :: 104 of 252
            Pseudo Genes (incomplete)         :: 153 of 252
            Pseudo Genes (internal stop)      :: 61 of 252
            Pseudo Genes (multiple problems)  :: 58 of 252
            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..4147
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB43-C19"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(574..936)
                     /locus_tag="NFK80_27360"
     CDS             complement(574..936)
                     /locus_tag="NFK80_27360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001243419.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFZ92440.1"
                     /translation="MVKLLLVRNEYFNKNNDLKTVARFDGKTLRDAFSRKIATFDGKVL
                     RDASLKKVATFDGKVLRDASLKKVATFDGKVLRDASLKKVATFDGQNLRDASSKIILSA
                     DAEVGIVVMAFVAELI"
                     /name="hypothetical protein"
     gene            complement(1161..1484)
                     /locus_tag="NFK80_27365"
     CDS             complement(1161..1484)
                     /locus_tag="NFK80_27365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="WFZ92441.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            1768..1962
                     /locus_tag="NFK80_27370"
     CDS             1768..1962
                     /locus_tag="NFK80_27370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="WFZ92442.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2800..3003)
                     /locus_tag="NFK80_27375"
     CDS             complement(2800..3003)
                     /locus_tag="NFK80_27375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000427298.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="retron Se72 family effector protein"
                     /protein_id="WFZ92438.1"
                     /translation="MENGFVNFYDHVKGYGFIRRERGRDVFFRYDDFLFLGHDVDICKG
                     ILVRFKLEKTDKGFKAVAIQKV"
                     /name="retron Se72 family effector protein"
     gene            complement(3008..4147)
                     /locus_tag="NFK80_27380"
     CDS             complement(3008..4147)
                     /locus_tag="NFK80_27380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000900598.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="reverse transcriptase family protein"
                     /protein_id="WFZ92439.1"
                     /translation="MNKPRFNGTPVASLDSLSAMLGIERKRLDWIVKSVSMSYKQFKVE
                     TGKNKKERQIFEPKRSLKGIQKKINKEIFEKIDYPHYLHGALSGRDYISNAAVHTRKRT
                     VICLDITNFYPSISKKDVCSIFKNLMRFSPDVSLCLTELVTLNNKVPQGGCCSSYIANL
                     LFFNSEYNLYNRLKSMGLSYSRLLDDITISSDKDLSSEEKTKVIKLVHGMVNQYRLSIN
                     ESKTTIEHSKDSSSKLSVTGLWVKHGVPKLTKENRRYIRYLVYICKKQGAYERHTKEYH
                     DLWNRCSGKVAQMSRLGHVQAVELRAILSEIMPVYDDYKISKLKLMAKHYLNKFTPPLT
                     DDQIRKIDRMLYDFDIVGRTNKNLAKLYRRKLVALLPDR"
                     /name="reverse transcriptase family protein"
     Typing          complement(1494..1733)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.17"
                     /coverage="100.0"
                     /evalue="1.65e-119"
     Typing          1998..2519
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.476"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(1165..1484)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.09e-62"
ORIGIN
        1 gatgtttgag ttaaaagtcg attagttaaa aagtttcgat acgtaatcta ttactttaaa
       61 cataatcaag cacatagaaa acaaaaactg tgtttttttc agtgcctcca gagagccaac
      121 ctctcttttt ttcttcatct gaccgtctcc agaacaagat gaagagctct tggttacgtt
      181 aatgttgatg ttgataataa acatgatgca actcctattg gttatgaaat tttgccagac
      241 cagtaggaaa gcaaggaaaa actctattgg ctctttggga cttttaactc acattgccag
      301 acaatcgtcg ctattctttt agtgctgata cacgctcagg ggcgttctca ccattaatta
      361 gcggccaggc cggtcatgat ctcatgcgag atcgccttaa aaacaaggca tcggtttcct
      421 tgcgcaacat acacgtaacc atttgttaaa gagcgagagc caggcgtggt tcgcccgctt
      481 cgctgattat tataaagttt tttatctttc tgtcaccaac aagaaagcgc cttatcctgc
      541 cagcgatagg ctaaaaggta tgcagcatga gattcaaatc aactcagcta caaaggccat
      601 aacaacaatc ccaacctcag catcggcact caggataatt tttgaactag catctcttaa
      661 attctgaccg tcaaaggttg ctactttttt taaagaggca tcccttaaaa ccttgccatc
      721 aaaagtcgcc acttttttta aagaggcatc ccttaaaacc ttgccatcaa aagtcgccac
      781 tttttttaaa gaggcatccc ttaaaacctt gccatcaaaa gtcgctattt ttctcgaaaa
      841 ggcatctctt aaggttttac cgtcaaaccg agcaacggtt tttaagtcat tgtttttatt
      901 gaaatattca tttctcacca atagtaattt aaccaattgt atttaccata atcccttaat
      961 tgtacgcacc acagaatcgc gctgagcgcg attctgacac agacactgca aaaagagatg
     1021 ttttacccta agaaaaccgg ggaaatgcgt caggatcgtt ttcagctcgc tgcatagcta
     1081 tgcatgaaag cgagtggtga tcactttggg agcttacagt gttcataccg tctgttttcg
     1141 acagttttct cccctggaag ctaatctgcc ataagcctgg ataacagggc acggtgatac
     1201 tccgtaatag cgatcagcac ctccgcatac tccctgtccc cgacacgctt gccgtcgata
     1261 aagagttttt tctgtaacgc ccccagtctc ataacttctt tcagtacccg atcatcagtc
     1321 agtgagttaa ctttcttacc gagagctgcc gcccgtaaaa aaccggaaac ggtcttgccg
     1381 cattcagcag ccctttttct gatttcctgg tcttcttctg ccgtcagacg aacagggcga
     1441 ctgatagccc gcctgcgcgt attacttcca cttcgttttg tcataaaaca tggctccgta
     1501 tctgacatgg gtgtcggggc aaagccctga ccagggtaat tgtaatagcg tgcatgtatg
     1561 cgcggtataa caattgcaca tcctgtcctg tcagcaagct cgaattaccg acaaaggcac
     1621 ggcagttttt tggcagtgac agtgttgtct gacagaaatg cccgtcaaag agtcagacag
     1681 cagaataccg acggtaaaac agtcgaaaag tggtacgcga tataatcaca caacgcagat
     1741 gacagaaaga acggagaaaa cagaaagatg aacaagcagc agcaaaccgt actcaacatg
     1801 gcaggattca taaaaagcca gagcctgacg ctgctcgaaa aactggacgc acttgatgct
     1861 gacgaacagg ccgccatgtg tgagaagctg cacgaactcg cggaagaact tcagaacagc
     1921 atacagacac gctttgaagc ggaaaatcgc accgggatat aacgcatccg gacaggatgc
     1981 agaacggcat agaggagcgt aaggagaaaa tgtcacataa ggcgctcttc cgcttcctcg
     2041 ctcactgact cgctacgctc ggtcgttcga ctgcggcgag cggtgtcagc tcactcaaag
     2101 gcggtaatac ggttatccac agaatcaggg gataacgccg gaaagaacat gtgagcaaaa
     2161 agccgaagcc agggacaaag gccgcgccga tggcgttttt ccataggctc cgcccccctg
     2221 acgagcatca caaaaaccga cgctcaagtc agaggtggcg aaacccgaca ggactataaa
     2281 gataccaggc gtttccccct ggaagctccc tcgtgcgctc tcctgttccg accctgccgc
     2341 ttaccggata cctgtccgcc tttctccctt cgggaaacgt ggcgctttct catagctcac
     2401 gctgttggta tctcggcccg gtgtaggtcg ttcgctccaa gctggactgt atgcacgaac
     2461 cccccgttca gtccgaccgc tgcgccttat ccggtaacta tcgacttgaa tccaaaccga
     2521 gaagacacga cttatcgcca ctggcagcag ccactggtaa ccgaattaga ggagttagcc
     2581 ttgaagtcat gcgcctgtta aggctaaact gaaagaacaa gttttggtga ctgcgctcct
     2641 ccaagccagt tacctcggct caaagagttg gtagctctga gaaccttcga aaaaccgccc
     2701 tgcaaggcgg ttttttcgtt tacacagcaa gagattacga cgagatagaa aggatctcaa
     2761 gttctcatat cataaaaaca agctgacaca tccacgatgt tatacctttt gaatcgctac
     2821 agctttaaac cctttatctg ttttttctaa tttaaaccta actaaaatac ctttacatat
     2881 atcgacatca tgccctaaaa acaaaaaatc atcataccga aagaaaacat cacgtccacg
     2941 ctcacgcctt ataaagccat accctttaac atggtcataa aaattaacaa atccattttc
     3001 catataatca cctatctgga agtaatgcca cgagcttacg tctatatagt tttgcaagat
     3061 tcttattagt ccgccctact atatcaaaat catagagcat cctatctatt ttcctaatct
     3121 gatcatcagt taaaggcggc gtaaacttat ttagatagtg cttagccatc aactttaatt
     3181 tagatatctt gtaatcatca taaactggca ttatctcaga aagaatcgcc ctcaattcaa
     3241 ccgcctggac atgcccaagc ctcgacattt gagcaacctt gccagagcat ctattccata
     3301 aatcatggta ctctttcgta tgacgttcat aagcaccttg ttttttacat atataaacta
     3361 agtacctgat ataacgtcta ttttcttttg ttaacttagg aacaccatgc tttacccaca
     3421 acccagtgac actaagttta gaagacgaat cttttgagtg ctctatcgtt gtcttacttt
     3481 catttattga aagtctgtac tgattcacca ttccgtgaac gagttttatt acttttgttt
     3541 tttcctctga tgaaagatcc ttatcagagg atatagtaat atcatctaaa agccttgaat
     3601 atgaaagtcc catagacttc aatctattat agagattata ctcactatta aaaaataaaa
     3661 gatttgcaat ataactagaa cagcacccac cctgagggac cttattattc aacgtcacaa
     3721 gttccgttaa gcataaagaa acatcaggag aaaaacgcat taaattttta aaaatagaac
     3781 aaacatcttt tttactaatg ctgggataaa aattggtgat atcaagacat ataactgttc
     3841 ttttcctagt atgaacagcg gcattagata tataatcgcg accacttaac gccccatgca
     3901 aataatgagg gtaatcaatt ttctcaaaaa tctctttatt tatttttttt tgaattcctt
     3961 tcaaagatct cttgggttca aaaatttgcc tttctttttt attcttccct gtttcaacct
     4021 taaactgctt gtacgacatc gatacagact tgactatcca gtccaatctt tttctttcta
     4081 tgcctaacat cgcagataaa gaatccaaag atgcaacagg agttccatta aacctgggtt
     4141 tattcat
//
