LOCUS       CP098949                6334 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB47-C06 plasmid unnamed2, complete
            sequence.
ACCESSION   CP098949
VERSION     CP098949.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488720
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6334)
  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  JOURNAL   Unpublished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 6334)
  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                     :: RHB47-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 77x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:11:22
            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)                     :: 4,839
            CDSs (total)                      :: 4,721
            Genes (coding)                    :: 4,579
            CDSs (with protein)               :: 4,579
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 142
            CDSs (without protein)            :: 142
            Pseudo Genes (ambiguous residues) :: 0 of 142
            Pseudo Genes (frameshifted)       :: 57 of 142
            Pseudo Genes (incomplete)         :: 82 of 142
            Pseudo Genes (internal stop)      :: 38 of 142
            Pseudo Genes (multiple problems)  :: 31 of 142
            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..6334
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB47-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            join(6078..6334,1..295)
                     /locus_tag="NFL56_24080"
     CDS             join(6078..6334,1..295)
                     /locus_tag="NFL56_24080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGC08943.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(494..709)
                     /locus_tag="NFL56_24085"
     CDS             complement(494..709)
                     /locus_tag="NFL56_24085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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="WGC08944.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(713..1198)
                     /locus_tag="NFL56_24090"
     CDS             complement(713..1198)
                     /locus_tag="NFL56_24090"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="WGC08945.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSAAMSQRTKGMLRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(1233..1667)
                     /locus_tag="NFL56_24095"
                     /pseudo=""
     CDS             complement(1233..1667)
                     /locus_tag="NFL56_24095"
                     /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(1876..2199)
                     /locus_tag="NFL56_24100"
     CDS             complement(1876..2199)
                     /locus_tag="NFL56_24100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="WGC08946.1"
                     /translation="MLTMWVTEDEHRRLLERCNGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(3188..3997)
                     /locus_tag="NFL56_24105"
     CDS             complement(3188..3997)
                     /locus_tag="NFL56_24105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010222407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGC08940.1"
                     /translation="MSKDKKERSKNRYHQLVEKIFFDKYVDGDLEVLFERLEINSAAKD
                     LGIELPSNVGDVIYSIRFRTPMPESILLTQPEGKEWIIELAGRSKYRFRLVTISRILPN
                     PNMVAIKIPDNTPEIITGYSLDDEQALLAKVRYNRLIDIFLGITTYSLQNHLRTTVKGI
                     GQIEIDELYVGIDKYGCHYIIPVQAKGGTDQISMVQTSQDTAWCEQKYPNVRCRAISAQ
                     FVSSDLIALFELKIDEGQVKLIEERHYKLVPAKELDSSDISNYRMSV"
                     /name="hypothetical protein"
     gene            complement(3990..5240)
                     /locus_tag="NFL56_24110"
     CDS             complement(3990..5240)
                     /locus_tag="NFL56_24110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015160339.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WGC08941.1"
                     /translation="MTRPIAVDLFAGAGGLSLGFEQAGFDIMASVEIDPIHCSAHKYNF
                     PMCKTICRSVVDVTGEYVREVSGIGEKEIDVVIGGAPCQGFSLIGKRALDDDRNKLVYH
                     YVRLVLELKPKYFIFENVKGLTVGKHKQFLVEIMDAFKDGGYDVVSDYKVLNAADYGVP
                     QDRRRLFLMGGRKGIALPSYPEPLSIRTTVGDAIGDIPDAEKYPELWDRDWVYAKFGEQ
                     SLYSSYLHGVGKDPSDFSYPRIFNKDKLTCSLLTDHSDISRGRFVETLPDTVEPISRFK
                     KLSMNGLCNTLRAGTASDRGAFTSPRPIHPIYPRVITVREAARLHSYPDWFRFHVTKWH
                     GFRQVGNSVPPMLARSVGLQIMKVLGVTPKKPTKKIKLGDESLVAISMSDAASMFGVSS
                     NVIAKRIKNSNKEVVCE"
                     /name="DNA cytosine methyltransferase"
     gene            5410..5664
                     /locus_tag="NFL56_24115"
     CDS             5410..5664
                     /locus_tag="NFL56_24115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016809949.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sigma-70 region 4 domain-containing protein"
                     /protein_id="WGC08942.1"
                     /translation="MFFLGNFFINSLSKIGVHMFGFGIQGTINKGFFLQMARRDQDAFL
                     QYLYDQGYSAKDISKNFDIPVPSVYNRINAHRGRGPLPN"
                     /name="sigma-70 region 4 domain-containing protein"
     Typing          complement(2301..2487)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.737"
                     /coverage="87.0"
                     /evalue="1.26e-45"
     Typing          2467..2946
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.938"
                     /coverage="93.0"
                     /evalue="3.51e-174"
     Typing          complement(391..1886)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgcagaaatt cacacgccaa aagcatggaa aatgctaacc gatggtcagc gctatccggt
       61 tgcttacctg agcgcacagg aagctttttt acgtattggg gtaacaccgg aacaactgga
      121 atggaagaaa ttccatcctt catccccatc ggttcctaat acagtgattc ctggtctggc
      181 tgaagagaaa acagaaaaac tctcccttaa cgaggcaatt gaaagagcca aaaaggatat
      241 tagcaacgca acagggattg atagctcagc cataacaata agcatcaaga tctgatgaag
      301 cgtgaacaac aagatagcag cctcatgttc tagaactgaa cctgtacgcc agaaacagca
      361 agcccatgct tttccggcgc acagattcaa agtgacggac cgttgtacgt tcgctgtcgc
      421 tgagatcgtt ccagctccag cgctttctga tgctgcgccg cccgttcctg ctcacgatgt
      481 gcctctatca cgttcagcct tgtgacaacc ggcgcagctg ctcgctcaaa ctctgcacct
      541 gcctgctcaa gcccgtaacg cgctcgctca gcgccgcgtt ctcccgttgc ataagaccag
      601 acatcgtccg ccattccgcg aaggcgttct cccactcgtc cagccttttc gagtagtcct
      661 gctgtagctg ctctaatgcg ctcagcaact gtttttccag ctccgtcatg tgctatttcc
      721 ccgccagtat catccagctc gaatcctctc cgaaccgtcc cgcttccggg ttcaccctca
      781 cgcagcggcg tctctgctct ccgcaggtcg agagctgcac accgctgttc ctctcggaca
      841 gcatggcctg cgtgcgcttc tgctcccgga tggtcgtgta attgtcgagt atctgctgcc
      901 cctgccacca cagaatgctt gcgcccgatg ctgtcagcag tgtagacacc aagacgatgg
      961 tcagccacgt ctggctgacc atccgcagca tacctttcgt gcgctggctc atggcagcgg
     1021 acagcttcct gtcgtggtcg aggatggcgg cgctgattct cttctcgctt tcgctcagtt
     1081 ccgctctgac agacttctcg tgctcgctga atgcggcttt cagcatctcg ccggtactct
     1141 gctgctgcgc tttcgatttc tgctctaagt ccttcgccag cgttaaaaga ctgttcatag
     1201 atggctccct tcagtcggat gtttcgcccc ccgtccgggt cggcaatgct gatgctgctt
     1261 tttgtggtgc gtaccacctc aaaacctgcg ctttccagcg cctcagtgac gtcctggcgg
     1321 gttttcagct ccccggacga ggctaaggcc agtaaacccc gtgtaattgc ctgagcggct
     1381 tcctgcttcg tttccggcag cgcggacggc gtgaccagcg cccgccggtt ttcaggcgcg
     1441 ttcgggtcat gcagccccag cctgccgttc acgatggtct gccaggcatc aatgcgcgga
     1501 cggtcggcgc ggtcgtaata cggctggaga cgcttgccgg tcagcagctc cgtgttcggg
     1561 atcaggaagt tcagctccag ccgcccctta tcctggtgct caacccacag cacgctgtac
     1621 tggtctttat cgagtccggg catcagaacc cgttcaaagc tcgccatcag cttttcgcgc
     1681 tgcccgggcg gtaaatcctt ttcggcaaag gacaggacgc cggatgtgta cttttttgcg
     1741 tagggcgagg cgtcgataag ctccctgact tcttccggct tcccctgcag aacggtggcg
     1801 ccgtcgcgct gtcggtcttt ccccagcaga taatccaccg gaccggcgcc accgccgcgc
     1861 cctcgcgggt gaaacttaac gatcatcgtc tgcacccttt tccagcacgg catgccgcag
     1921 ccgctcgagt ccggcatcta tggccatcag cgcggcgacg acctgcacgc ggtcgtgccc
     1981 gctgccacca ccggcgttaa cctgccgggc aatctggttg aggttgttcc ccataccggc
     2041 aagctgacga agcagcgccg gcgagagcga gggaagcttg ccggcgcggg cgggtttctc
     2101 gtccaggcac gtctggcgca tccaggctgc aagctgttta ccgttgcagc gctccagcag
     2161 acggcggtgc tcatcttcgg tcacccacat cgtgagcatt ttgctgcgtt tgtctgccaa
     2221 tccggcctcc tgataacgcc gggacgggcg ggaaatcttt tcccggtcgg cgcggtgttg
     2281 gacaagccgc aggcgcgtca gtggttttag cgggtttcgg ggcgcagccc tgaaccagtc
     2341 acgtagcgct agcggagtgt atactggctt agtatggtaa atcgaagtgg aaattcaggg
     2401 aagagcttca tgtggcaggt aaaaaattca gctgtggggc gtaagtgcga aatgctggag
     2461 acgatgaaat gacgcctcct cgctcactcg gtcgctacgc tcctgccgtg agactgcggc
     2521 gggcgttacc tgctcaagaa tgacgagatg aatagcgctc aaatcaagaa ggaaggggaa
     2581 aaggatccgg cgttgccgtt tttccatagg ctccgccccc ctgacaagca tcacgaaatc
     2641 tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc
     2701 cctggtggct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg tgtcattccg
     2761 ctgttatggc cgcgtttatc tcattccacg cctgacactc agttccgggt aggcagttcg
     2821 ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gaccgctgcg ccttatccgg
     2881 taactatcgt cttgagtcca acccgaaaag acacgactta acgccactgg cagcggccac
     2941 tggtaatcgg attcacggag cggagtagag ttatctacag agttcttgaa gtggtggcct
     3001 gactacggct acactgaaag gacagttttg gtatctgcgc tccgtgaaag ccagttacct
     3061 tcggaagaaa gagttggtag ctctaaattc cggcaaacga accaccgttg gtagcggtgg
     3121 tttttttgtt tacggcttag gagattacgg ctagaacgaa aggatctcaa gaagatcctc
     3181 tcagaaatta tacagacatg cggtagtttg agatgtcaga gctatctaac tcttttgccg
     3241 gaaccagttt gtaatgcctt tcctcaatca atttcacttg tccttcgtct atctttagct
     3301 caaacagtgc aatcaaatcg ctcgaaacaa actgagcgga aatagctcta catctaacat
     3361 ttgggtattt ttgttcacac cacgctgtat cttgcgatgt ttgcaccatt gatatttgat
     3421 ctgtcccacc ttttgcttga actggtatta tataatggca accgtattta tctataccta
     3481 cataaagttc atcgatctct atttgaccaa ttcccttcac cgtagttctt aaatgattct
     3541 gtaaagaata tgtggttata cctagaaata tatctattag ccggttatat ctcaccttcg
     3601 ccagcaatgc ctgctcgtcg tctaaagaat aacctgtaat tatctccggg gtattgtctg
     3661 gaatttttat tgccaccata ttaggatttg gcaaaatcct actaatagtt actaatctaa
     3721 atcgatactt tgacctacca gccagctcaa taatccactc cttaccttct ggctgagtca
     3781 acagaatact ttctggcata ggcgttctaa atctgattga atatataaca tcaccaacat
     3841 tagatgggag ttctatacct aaatcttttg cagcactgtt tatctctaac ctttcaaaca
     3901 aaacctctaa gtcaccatca acatatttat cgaaaaatat cttttctacc aactgatggt
     3961 atctattttt ggacctttct tttttatcct tactcacaaa caacctcctt gttactattt
     4021 tttattctct tagcaattac atttgatgac acaccaaaca tagatgcagc atcagacata
     4081 gaaatagcaa ccaaactttc atcaccgagt ttgattttct tcgttggttt ttttggcgta
     4141 acaccaagaa ccttcataat ctgcaagcca acacttctag ctagcatagg aggaacacta
     4201 ttaccgacct gtctaaatcc atgccactta gtcacatgaa atctgaacca atcaggatat
     4261 gaatgcagtc ttgctgcctc tctgaccgtg atgaccctag gatagatcgg atgtatagga
     4321 cgaggagatg taaaagcacc tctgtcactt gctgttcctg cccttaaagt attacatagc
     4381 ccattcatcg agagcttttt aaacctgctg attggttcta ccgtgtcagg caaagtttca
     4441 acaaaccgcc ctctagaaat gtcagagtga tctgtcagta aagaacacgt taatttgtct
     4501 ttattaaaaa tccttgggta gctaaaatca ctaggatctt ttcctacgcc atgcaaatag
     4561 gatgagtata gtgattgctc accaaattta gcataaaccc aatctctatc ccatagctca
     4621 ggatattttt ccgcatcagg aatatcccca atagcatccc caaccgttgt tctaatggat
     4681 aatggctcag ggtatgatgg cagagcaatt cctttccttc cccccattaa gaaaagacga
     4741 cggcgatctt gaggaactcc ataatcagct gcgtttagca ctttataatc gcttacaacg
     4801 tcgtacccgc catctttaaa tgcatccatt atctctacta aaaactgctt atgcttacca
     4861 accgtcaacc cttttacatt ttcaaaaata aagtatttag gctttagctc aagaaccagc
     4921 cgtacatagt gatagaccag tttgtttcta tcatcatcaa gcgcgcgttt tcctattaat
     4981 gaaaagcctt ggcagggagc gcctccgatc actacatcaa tctctttctc accaatacct
     5041 gaaacttccc taacgtattc tccggtaaca tcaacaacac ttctacatat cgttttgcac
     5101 ataggaaagt tatatttgtg agcagagcaa tgtattggat ctatttcaac tgatgccatt
     5161 atatcaaagc cagcttgctc gaaaccgaga ctcagcccac ccgctccagc aaataaatca
     5221 acagcaatcg gtctagtcat tctttacacc cacgttatat aaaatcaaca tgatgctatc
     5281 agaaaaacga tcgctttacc gatcgttttt ctgatttcga ttgaacataa catccctgcc
     5341 acgaacctgc ggaacgatca ctaccaaaaa agaagtgata aaggatataa acaggaaagg
     5401 cttgacttta tgtttttttt aggtaatttc tttatcaatt ctttatcaaa aataggggtt
     5461 catatgtttg gatttggtat tcaaggcact attaataaag gatttttcct tcagatggct
     5521 cgtagagatc aagatgcatt tttgcaatac ctctatgacc aaggatactc ggcaaaagat
     5581 atcagcaaga acttcgatat tccggttcct agcgtctaca acagaatcaa tgctcatcga
     5641 ggccgtggac cacttcctaa ttaatggttc tcctatacaa aaagccgcct cagggcggct
     5701 ttttgtatag gagaaccatt aagatttacc ataacatctc ttgcccgcac cgctccggac
     5761 gggttcagcg tgaaagcggc gttagcccgg taaaaccggc agtaaactcc ccgctaaacc
     5821 gcgcattctg cgcctgataa atttcacgtg gctgcatagc catgcagcca cgtgaattgc
     5881 tcatgctttc aatgtatatc ctcgtccaag cccctgtttt aaccggttta tcaaaaaacc
     5941 aaacagaaag ccttaccact aacaataaaa gaggtaggag gactgtattt tatcgcataa
     6001 aaaacattta caacacgatt tttatcgtat agattccata aaaaaatgaa attcactcac
     6061 ctattaaggg tttctatatg aaagatatga aagctgttgt ggtttttacc gggaaggatt
     6121 tgaacataat gagaactgag ggggggtcag gctactggca tgccagaaca gacaggctca
     6181 acgatgccga ttacctcata gcagtaagaa acagaaggga aacgtgggca gtaaaagacc
     6241 tggaacacgg cacagcattc ctgatcgcca aaattaccgg gtgttttaaa agccctgatt
     6301 acgacgacag gaacgtcata acctttgatg aata
//
