LOCUS       CP099036                4197 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB45-C06 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099036
VERSION     CP099036.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488684
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4197)
  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  JOURNAL   Unpublished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 4197)
  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                     :: RHB45-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 158x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:02:23
            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)                     :: 4,716
            CDSs (total)                      :: 4,595
            Genes (coding)                    :: 4,347
            CDSs (with protein)               :: 4,347
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 248
            CDSs (without protein)            :: 248
            Pseudo Genes (ambiguous residues) :: 0 of 248
            Pseudo Genes (frameshifted)       :: 71 of 248
            Pseudo Genes (incomplete)         :: 172 of 248
            Pseudo Genes (internal stop)      :: 48 of 248
            Pseudo Genes (multiple problems)  :: 40 of 248
            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..4197
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB45-C06"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            43..237
                     /locus_tag="NFL20_23570"
     CDS             43..237
                     /locus_tag="NFL20_23570"
                     /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="WGB00254.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQATMCERLHELA
                     EKLQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1256..2212)
                     /locus_tag="NFL20_23575"
     CDS             complement(1256..2212)
                     /locus_tag="NFL20_23575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001189381.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003677 - DNA binding [Evidence IEA]; GO_function:
                     GO:0009036 - type II site-specific deoxyribonuclease
                     activity [Evidence IEA]; GO_process: GO:0009307 - DNA
                     restriction-modification system [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="type II restriction endonuclease"
                     /protein_id="WGB00255.1"
                     /translation="MKKLSSRYKRLFFMQRLSPGEFKTLISKERKSHFITPFALVYKTF
                     CDLGYDQKNSDYFLNNPSEYIIAMRKNCWKEFEPFEKEFTTRMLSYLIDEERIKDMSPY
                     DAIRDFTMEYPTHIYDLALSNTQSRRSRAGKEFESILELLMMGAGIPVDVQGAIGKSFF
                     QKNQIGKLVDLVMPGVVQYTSNKRNTMLISAKTTLRERWQEVPEEVNRTGIREMYLATL
                     DDSFSEETINILYEANVVVVTTIENKNFKYKNNNRVLTFEDMLQSAMELSRKWNNVSYT
                     DSEKEEIQRSILKQIEKYSDFPYVVNYYRNRLSALFD"
                     /name="type II restriction endonuclease"
     gene            2283..3422
                     /locus_tag="NFL20_23580"
     CDS             2283..3422
                     /locus_tag="NFL20_23580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000131511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA (cytosine-5-)-methyltransferase"
                     /protein_id="WGB00253.1"
                     /translation="MTDNIAATIKEKRERLHMTQKEFADALGLSKYGDRTIRRWERGET
                     KPTGAELKAVIDFPDTPPYPNNENGRYRMIDLFAGIGGTRLGFHQTNAVNVVFSSEWDK
                     FAQKTYHANYGDFPDGDITKIDEKDIPDHEILVGGFPCVAFSQAGLKKGFNDTRGTLFF
                     DIARIIKEKKPHAFLLENVKNLLGHDKGRTFSIIKNTLEELNYTVYYNIFAAKDFGVPQ
                     NRERIYIVGFNKEKVRNHEHFTFPTPLKTKTRVGDILEKSVDNKYTLSDALWNGHQRRK
                     LVNAAAGKGFGYGLFNENSPYTNTISARYYKDGSEILIEQKGSNPRKITPREASRLQGF
                     PSDFIIPVSDTQAYKQFGNSVAVPVINAIAEKIISTLDS"
                     /name="DNA (cytosine-5-)-methyltransferase"
     Typing          complement(318..403)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          complement(4106..4194)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.889"
                     /coverage="90.0"
                     /evalue="1.05e-37"
     Typing          425..975
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.213"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agggtccccc cgacacccgg aactgacgga gaacaacgga aggtgaataa acaacaacaa
       61 actgcgctga atatggcgcg atttatcaaa agccagagcc tgacactact tgaaaaactg
      121 gatgctctgg atgccgacga acaggcgacc atgtgcgaac gactgcacga actcgcagaa
      181 aaactccaga acagcatcca gattcgcttt gaggccgaaa gtgaaacagg aacataacga
      241 agctgacgga ggcggtcacg gctttcccgt gagcgttttc ggcagcagac aagcccgtca
      301 gggcgcgtca gggggtttta gcgggtgtcg gggcgcagcc atgacccagt cacgtagcga
      361 tagcggagtg tatactggct taactatgcg gcatcagtgc agattataag aaaagagcac
      421 catatgcggt gtgaaatacc gcacagatgc gtaaggagaa aatgccgcat caggcgctct
      481 tccgcttcct cgctcactga ctcgctacgc tcggtcgttc ggctgcggcg agcggagtcg
      541 gctcacgcaa agacggtaat gcggttatcc acagaatcag gggataaggc cggaaagaac
      601 atgtgaacaa aaaggcaaaa ccaaggaaaa aggccgcgcc gctggcgttt ttccataggc
      661 tccgcccccc tgacgagcat cacaaaaatc gacgctcaag tcagaggtgg cgaaacccga
      721 caggactata aagatcccag gcgtttcccc ctggtcgctc cctcgtgcgc tctcctgttc
      781 cgaccctgcc gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt
      841 ctcatagctc acgctgttgg tatctcagtt cggtgtaggt cgttcgctcc aagctgggct
      901 gtgtgcacga accccccgtt cagcccgacc gctgcgcctt atccggtaac tatcgtcttg
      961 agtccaaccc ggtaagacac gccttaacgc cactggcagc agccactggt aaccggatta
     1021 gcagagcgag atttatccag atgcttacag agttcttgaa gtgatggcct aactacggct
     1081 acactggaag gacagtattt ggtatctgtg ctctgctgaa gccagattac ctcggttaga
     1141 taatctgcca ggattagcta accttcgaaa aaaccacctg ccagggtggt tttttcgttt
     1201 acaggtccaa gattacgcgc agaaaaaaag gatctcaaga gatcctttta gttttttagt
     1261 caaaaagagc actaagccta tttctataat aattaacaac ataagggaaa tcactatatt
     1321 tttctatttg ttttaatatt gaccgttgaa tttcctcttt ttcagagtct gtgtaactta
     1381 cattattcca ctttcttgat aattccattg ctgactgaag catatcttca aaggttagca
     1441 ccctattatt atttttatat ttgaaatttt tattttctat cgtcgttaca acgaccacat
     1501 tagcctcgta caatatattt attgtctcct cgctaaaaga atcatctagt gtagctagat
     1561 acatttctct aattcctgtt ctattaacct cttcaggtac ttcttgccat cgctccctca
     1621 gcgttgtttt agcggaaatc aacattgtat ttcttttgtt agatgtgtac tggactacac
     1681 ctggcataac aagatctaca agtttaccta tttggttttt ttgaaaaaat gacttcccaa
     1741 tagccccctg cacatcaaca ggaattcctg cccccatcat taatagctca agaatagact
     1801 caaactcttt tcctgccctg ctacgtctgg attgagtgtt agacagtgcc aaatcatata
     1861 tgtgtgtagg gtattccatc gtaaaatcac gaatggcatc ataaggactc atatctttta
     1921 ttctttcttc atcaataaga tatgataaca ttcttgttgt gaattctttt tcaaatggtt
     1981 caaattcttt ccaacagttt tttctcattg caattatata ttcacttgga ttattcaaaa
     2041 aataatcact atttttttga tcatacccta aatcacaaaa tgttttataa accaaagcaa
     2101 atggcgtaat aaaatgcgat tttctctctt tagaaattag agttttaaat tcaccaggac
     2161 ttaatctttg cataaaaaat aaccttttat atctacttga aagttttttc atgcacgttc
     2221 ataattggaa tcaaaacagg acaaattgtc ctaaaaccaa cacttaattc tggtagacat
     2281 gcatgactga taatatcgca gcaacaatca aagaaaaaag agaaagactt catatgactc
     2341 aaaaagagtt tgcagacgcc cttggtcttt caaaatatgg agacagaacc ataagaagat
     2401 gggagcgcgg ggaaacaaaa cctactgggg cggaactaaa agcagttata gactttccag
     2461 acacaccacc ttacccaaac aacgagaatg gcagatatcg catgatcgat ttatttgctg
     2521 gaatcggtgg aaccagactt ggatttcatc aaactaacgc tgtaaatgtt gttttttcca
     2581 gcgaatggga taagtttgct caaaagacat atcatgcaaa ttatggtgat ttccctgatg
     2641 gggacataac aaaaatcgat gaaaaagata ttcctgatca tgaaattctt gtcggtgggt
     2701 ttccttgtgt agcattctct caagcaggcc tcaaaaaagg atttaatgat acaagaggaa
     2761 ctttgttttt tgatatagca aggataataa aggaaaaaaa acctcatgct tttttacttg
     2821 aaaatgtaaa aaacttgcta ggacatgata aaggtagaac tttttcaata ataaaaaaca
     2881 cacttgaaga attgaattac actgtgtatt acaatatctt cgctgcaaaa gactttggtg
     2941 ttccacaaaa tagagagcgc atatacattg taggctttaa taaagaaaaa gtaagaaatc
     3001 atgaacattt tacttttcca accccattaa aaacaaaaac aagagttgga gatattcttg
     3061 aaaagagcgt agacaataaa tatacgctat cagatgcgct ctggaatgga caccaacgca
     3121 ggaaacttgt aaatgcagca gccggtaaag gctttgggta tggtttattt aatgaaaata
     3181 gcccatatac taataccata agtgcgaggt actataaaga tggtagcgaa atattaatag
     3241 agcaaaaagg aagtaaccca agaaaaataa ctccgcggga agcgtcaaga cttcaagggt
     3301 ttcctagtga ttttattatc cctgtatcgg atacacaggc ttataagcaa tttgggaatt
     3361 cagtcgcagt ccctgttatc aatgcaatag cagaaaaaat catatcgacc ttagattcat
     3421 aaactaagtc atgaggacac aatgcggccc agaatccaat taccccccat atggatttac
     3481 cataacgtcg cattacgcgc accgctaaaa cgcgctgaac gcgattctgc cgcgaacacc
     3541 gcaaaaagag atgttttttc ccggggtaaa ccggaaaaac gcgtcaggat cgctttcagc
     3601 tcactgcata gctatgcatg aaagtgaatg gcgatcggtt tgggcgcata tggtgcccat
     3661 gagacacatt ttcggacatt ttcagttcgt gaatccctga ctcattgcta catatctgaa
     3721 cagacacccc tagcagcgct cccaggggcg ttatgtaaaa aaaggcgacg cgcccctagg
     3781 ggcgcaccta cattaattaa ctgttttttc tgcagatagt cagtactgac cctaagtagg
     3841 gtcgccatag cgtcgccata gggtcgtcga cgacgtgctt ttgtataaat ctgaataaga
     3901 aaatatattt ttaaaaccat aacaacatga tttaaaaagc aaatcagcaa aaagttggtt
     3961 ttgcgtgggg tgtgggcatt tcgggtatga gaacagactc gcgtttttcc ggagtatcag
     4021 cggaattatt gattaagaaa cactcgatgc agagcgaaat tttatgcaac agcggctgca
     4081 ctgcacaggg attatttatc agttgatatg ctgtgccatg atacgtccta aagaaacagg
     4141 acaggatgtg caattgtaat accgtcgccc gcaacgtctt acaattacca cctgctc
//
