LOCUS       CP098994                5875 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C07 plasmid unnamed3, complete
            sequence.
ACCESSION   CP098994
VERSION     CP098994.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488709
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5875)
  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  JOURNAL   Unpublished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 5875)
  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                     :: RHB46-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 112x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:21:24
            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)                     :: 5,091
            CDSs (total)                      :: 4,970
            Genes (coding)                    :: 4,762
            CDSs (with protein)               :: 4,762
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 79 of 208
            Pseudo Genes (incomplete)         :: 136 of 208
            Pseudo Genes (internal stop)      :: 46 of 208
            Pseudo Genes (multiple problems)  :: 49 of 208
            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..5875
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C07"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4874..5875,1..51))
                     /locus_tag="NFL45_25420"
     CDS             complement(join(4874..5875,1..51))
                     /locus_tag="NFL45_25420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB68582.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGNGGYSHPEGISTTWHSESKLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIDNSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGVPVDDASMFFNSFQPRKFE
                     NNPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(771..1004)
                     /locus_tag="NFL45_25425"
     CDS             complement(771..1004)
                     /locus_tag="NFL45_25425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WGB68583.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1011..1541)
                     /locus_tag="NFL45_25430"
     CDS             complement(1011..1541)
                     /locus_tag="NFL45_25430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WGB68584.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(1579..2010)
                     /locus_tag="NFL45_25435"
                     /pseudo=""
     CDS             complement(1579..2010)
                     /locus_tag="NFL45_25435"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2219..2542)
                     /locus_tag="NFL45_25440"
     CDS             complement(2219..2542)
                     /locus_tag="NFL45_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WGB68586.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAAWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALIAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2608..2799
                     /locus_tag="NFL45_25445"
     CDS             2608..2799
                     /locus_tag="NFL45_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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="WGB68585.1"
                     /translation="MTKQEKTALNMVRFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4006..4872)
                     /locus_tag="NFL45_25450"
     CDS             complement(4006..4872)
                     /locus_tag="NFL45_25450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WGB68581.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     Typing          complement(2894..2975)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.795"
                     /coverage="100.0"
                     /evalue="6.23e-34"
     Typing          complement(3432..3619)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(668..2229)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.04"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaaactggat gataattgtg gtagtttatt tatacgttgt tgaagattca tgaaagctcc
       61 cacaagacac ctcatatatt ttttatatac tgaaactaca ttatatttat taccgacgta
      121 aaacgaaata atttattatc gttaccgata ttttaaaaaa tcattatttg cacagtgttc
      181 gagttgttag tatcactcct tcctgaaaat ccgctccatt taccataacg tcgcattgta
      241 cgcaccgcca aaacgcgttc ggtgcgatca cggcagcaga caggtaaaaa tggcaacaaa
      301 ccacccgaaa aactgccgcg atcgcacccg ataaatttta accacatgca tagctatgca
      361 gccatgtgaa tcacgcagga attgccagcc agagactgct gaaacggatt tttttcatac
      421 tttcggaaag gcagaagacg gaaccggagc ggaaaaacag aaattcatgg gaatgagcgc
      481 gatctggcaa taacggcaaa acacagcaac aaagacacac cagaatcgcg cccgcatgcg
      541 ttttaacgcg ttcctgtgtt ttcagcaagc tctgactgaa gcgcgttccc ggtgcccccg
      601 aaccaaccat tatcccaaaa aatgcaccgg aaacgcgctg ccaacatttt agcctgtctc
      661 tggttaccat cccagcgaag ggccatccag tgtccgttcc tgaatttccg gctggcgctc
      721 ccgctccagg gataacgcat attcgcgctc ctgtatcagc cgctcatccc ttatctccag
      781 ttctcgctgt ataactggct caagcgttct gtccgctcgc tcaagtgctg cacctgctga
      841 ctcaactgca tgactcgccc gttcagcatc gcgttgtccc gttgcgtaag cgaaaacatt
      901 ttctgcaatt ccacgaaggc gttctcccat tcgttcagcc gctgcatata gtcctgttgc
      961 agttgctcta atgcgttcag caaatgtctt tccagctccg tcatgctctg tcactcctgc
     1021 accagtctca ctgcgttcag tttgccgttg tccttcgtcc agttcgtttc ggctttcatc
     1081 cccttcggca acaccagaaa acgtccgttg ctgtcctcgt gataacgcac gccccatgtc
     1141 ttcgcgttca gcttctccag actctctttc tgctcgcgga gaatattcat attcgcgttt
     1201 atcttcatgc cctggtacca cagcagactc ccggtcgtgg caaacatcag tactgagacg
     1261 ataatcagcc acagccagcg tttcacgctc attttcagta cggttttcca gtgcgcgtcc
     1321 atcgtatcga cggtcgtttt ctgatacctc tccagcagtt ctttcagggc tgttgtatgg
     1381 tcgttgatag cgttcctgat taaagattcg tttgaggtca gttccctgtt tacagattct
     1441 tcgagcttcc tgaactcgtc gttcagcatt ttctctgtag attcggctct ctctttcagc
     1501 tttttctcga actccgcgcc cgtctgtaaa agattgctca taaaacgctc ctttcagtct
     1561 gatattcctc ccgccgttcg ggtctgcaat gctgatactg cttcgcgtca ccctgaccac
     1621 ttcaagcccc gcctctgtga gcgcctgaat cacatcctga cggcctttta tctctccggc
     1681 atggtaaagc gcgtctatcc cgcgtgtgac gccctcagca agcgcctgtt tcgtttccgg
     1741 caggttatca ggaagggtca gcgtccggcg gttctccggg gcgttggggt catgcagacc
     1801 gtaatggtga ttcaccagca tctgccaggc atcaattctc ggcctgtctg cccggtcgta
     1861 gtacggctgg aggcgttttc cggtctgtag ctccatgttc ggaatgacaa aattcagctc
     1921 aagccgtccc ttgtcctggt gctccaccca caggatgctg tactgatttt tctcgagacc
     1981 gggcatcagt acacgctcaa agctcgccat cactttttca cgccctcccg gcggcagctc
     2041 cttctccgcg aacgacagaa cacctgacgt gtatttcttc gcaaatggcg tggcatcgat
     2101 gagttcccgg acctcttccg gattcccctg aagcaccgtt gccccttccc ggttacgctc
     2161 ccttcccagc aggtaatcaa ccggaccact gccaccacct tttcccctgg catgaaactt
     2221 aactatcatc ccgcgccccc tgttccctga ccgccagacg cagccggcgc agctcatccc
     2281 cgatggctat cagtgcggcc accacctgaa cccggtcacc ggaagaccac tgcccgctgt
     2341 tcaccttcct cgctgtctgg ttaaggttat tcccgatagc ggccagctga cgcagtaacg
     2401 gcggtgccag tgtcggcagc ttcccggaac gggcaacagg ctcacccagg cagacccgcc
     2461 gcatccatgc cgccagttgt ttaccctcac agcgttccag taaacgggca tgctcatcat
     2521 cagtcacccg tatcgtgagc atcctctcgc gtttcatcgg tatcattacc cccatgaaca
     2581 gaaatccccc ttacacggag gcatccagtg actaaacagg aaaaaaccgc ccttaacatg
     2641 gtccgcttta tcagaagcca gacattaacg ctgctggaga agctcaacga actggacgcg
     2701 gatgaacagg cagacatctg tgaatcgctt cacgaccacg ccgatgagct ttaccgcagt
     2761 tgcctcgcac gcttcgggga tgacggtgaa aaccgctgac acatgcagct cccggagacg
     2821 gtcacagctt gtctgtgagc ggatgccggg agcagacaag cccgccaggg cgcgtcaggc
     2881 cgttgacctt tggggtgtcg gggcgaagcc ctgacccagt cacgtagcga tagcggagtg
     2941 tatactggct taatcattcg gcatcagtgc ggattgtatg aaaagtgcgc catgtcgggt
     3001 gtgaaatgcc gcacagatgc gtaaggagaa aatgccagtt caggcgctct tccgcttcct
     3061 cgctcactga ctcgctacgc tcggtcgttc ggctgcggcg agcggactct cctttctcaa
     3121 aaacgctaac cctgttatcc acagaacccg gggataaacc aggaaagaac atgtgcgcaa
     3181 aaaacgaaac cccggaaaag gccgcgccgg aggcgctttt tccataggct ccgcccccct
     3241 gacggacttc acaaaacaga cactttttcg gtgcatctgt gggagccttg cggctcaacc
     3301 atgaaatccg ccagcggtgg cgaaacccga cgtggcttaa agatcatcac cgtttccggt
     3361 gaatcgctcc ctcctgcgcc cccacgttcc cgccatatcg attaccggat accttttccg
     3421 cctttctccc ttacgggaca cgtggcgctt tctcatagct cacgtcttct ggtatctcgg
     3481 ggcgacttag gcagttcgct ccgggctggg ctgtatgcag gaaccccccg ttcagcccga
     3541 ctgctgcgcc ttctccggta actgttctct tgggtccaac ccggaaaaga caccacaaag
     3601 cgccactggc agcagccatt ggtaaaagtc atgtgcgaga tatttagaga gtacttgaag
     3661 tggctgccgg agtgcggcta cactagaaga acaattttgg tgactcgtct cgcataagac
     3721 agttacctgg ttaagcagtc tgcaagctaa cttaaccttc gatcaaaccg ccctgcaagg
     3781 cggttttttc gtttacaggc agcagattac gcgcagaaaa aaaggatctc aagaggatcc
     3841 tttgatcttt ttgttacaaa cgtctctatt tgactcccct gagagcgttt tagcgcgcct
     3901 ctgccccccc ttggttacat tccgacacca gaaacgctcc cgttttttac gtgcatttgg
     3961 cacggtatcg atggaggccg ggggggggca atcctgaaca gaatgttact cctctgagta
     4021 ttttctgtta agaaaatata cacttagcac agttacaata aatcctaccc cctgtaagaa
     4081 tgtgaattgt tcatccaaaa acaaccatga caaaaataat gcaactagcg gaataaagta
     4141 caacattatc cctgccaaat gaactgggag ccaacgcaag gagttcaagt aaaaacaaaa
     4201 agctaaaaaa tattgtaata ttccagatga aaaaacaata atcacggatt ccaacggaag
     4261 ataaattgag gatttagata taaaaataaa gagcgatgac agtataaggg agaatgtcaa
     4321 ctgtccgctc aataatgtga taggctcaaa cgatttaata aggcgagacg atataacaac
     4381 ataaaatgct gccgataaca caccggcaac aacaagacaa tatccaacaa tattattcga
     4441 tccattactg atgtctggca aggctaccaa aatactgcca acaattgcac ctataaggaa
     4501 caatataaaa tattgcgggg aattaatttt aactgagcaa ataagaacag acaacaccaa
     4561 tataaacact gattcaagtg aaaaaataat tgatgcgctt cctgctgaaa taaaataaag
     4621 tccgtagagt gtaaaagtat acgctaagaa tggttcaaaa acgcctgtcg cataagcaag
     4681 tatcgctttt gagtttaatg ggagtttttt tctttttata aaaagaacta tccaagatag
     4741 tattactgca ctacaaatct gccagaaaaa cacccctccg gcatctagtt cttcaactcc
     4801 ttttttgctc attacgatag ctgcccccca tgagaacgct gctaaaaaag caaaaagcat
     4861 tcctttaatc atattaatca tcctctttct cataaagggg gttgttttca aatttccttg
     4921 gttgaaagga gttaaaaaac atagatgcat catctacagg aacaccaata aactctccat
     4981 aataaggatc atctatagga aactcttcta atgaaacata aaacaataca ttccagttga
     5041 agatcattgg atcactatta tctatttcat ggagcaatct ttcatcctta gttaattctc
     5101 ctggaattaa tacatcagta tgataaaaac cgctgtaata agaactatta ccggtgtgca
     5161 ctgggcatcc aaaacgatcc aatttagatt ctgaatgcca tgttgtagaa atcccttccg
     5221 gatgtgaata cccaccgtta ccaacagact gaatagtcat gttacgaata tccgctaacg
     5281 cttgttcttg atctttatag aaaccttttt ctatcgccag cctcataaaa tgccccgggg
     5341 catttacaga aataagtatt ccccccggta ttcttctatc atgatttctt gttctatgag
     5401 cagaagagta aaaaacatta acaccagcct tatatatttt tagcccatct ttatcctgaa
     5461 atggtacgct ttcagtataa ataacatcct cttttattgg atagcactct ggcatatgca
     5521 gcgaacaaat atatttttgt atgtccacta actcttctga tggacgagca aatgcaagtt
     5581 gtggatgaat aaaataaatg agatgcgcac tgacctctcc tcttcttgcg cgttctttaa
     5641 aacgaactct ttcattacgc aaaaaatcaa acaaatgacc atcatcatta tatagttggg
     5701 ggctatttac aatagataaa tggaaatcaa gccctttaat tttcttgctt gccaatttac
     5761 caaatacaca gggctgattg cctgacaccc attttcttag taaatcttca attttatctt
     5821 tagaagtttc gttaaagata aatgaatgaa tattatcaat atcttttcca aatga
//
