LOCUS       CP098998                6500 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C05 plasmid unnamed2, complete
            sequence.
ACCESSION   CP098998
VERSION     CP098998.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488707
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6500)
  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  JOURNAL   Unpublished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 6500)
  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-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 117x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:28:05
            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)                     :: 4,823
            CDSs (total)                      :: 4,706
            Genes (coding)                    :: 4,516
            CDSs (with protein)               :: 4,516
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 190
            CDSs (without protein)            :: 190
            Pseudo Genes (ambiguous residues) :: 0 of 190
            Pseudo Genes (frameshifted)       :: 59 of 190
            Pseudo Genes (incomplete)         :: 126 of 190
            Pseudo Genes (internal stop)      :: 39 of 190
            Pseudo Genes (multiple problems)  :: 31 of 190
            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..6500
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C05"
                     /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(6022..6500,1..106)
                     /locus_tag="NFL43_24030"
                     /pseudo=""
     CDS             join(6022..6500,1..106)
                     /locus_tag="NFL43_24030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="internal stop; incomplete; partial on complete
                     genome; missing N-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            103..1782
                     /locus_tag="NFL43_24035"
     CDS             103..1782
                     /locus_tag="NFL43_24035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000598747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WGB63811.1"
                     /translation="MIKVQLPTREHRLHELNLNYGDVVFFIGQNGSGKSSLLNNLFQKI
                     GSQSSVYVLAHRKNTFSSDIIDFSNSEYKNAQGWIFNEIKGSQCRYRVNYDSQMVAIPI
                     VKLKNKVIARALSFVDSFKSNNNQPAELIKSEVDVLNMVFADAKLSIEFFLDDEANVMA
                     RNIKGENPDVYPISMLSDGEKSALIIASEIICADENTTIFLDEPERHMHRSIVSPLLSS
                     LMKYRRDCVFFVATHELSLPAFFDNVKVVNVKNCYFSEQREPIYWDFNVVEDYDELFNG
                     VDEQTKIDILGARDKVLFVEGVTSSLDRDLYSAIFPMVSVVSKQKCDLVELAVKGLRLN
                     DEIHRVSAFGIIDNDNKVQAKVDNLKKDFIFSLDVHSIESIYYHPRMIKFVIDFVKEAN
                     GIDNVDALFMEIHDFAIDAINEKRDHLCCRAVEKTIRADLMSAIPKQQDIKNRIKFNKE
                     IDIECYVNKEIAAFDAMIAERNLDALVSRYPIRETNLLAHVAKKCGFADRSRYELNVIR
                     TIKSNADARAFVLSLLGGLDEAILGCSDTENSPADTHTVFAM"
                     /name="ATP-binding protein"
     gene            complement(2019..2213)
                     /locus_tag="NFL43_24040"
     CDS             complement(2019..2213)
                     /locus_tag="NFL43_24040"
                     /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="WGB63812.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADVQAAMCERLHELA
                     EELQNSIQVHFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3007..3717)
                     /locus_tag="NFL43_24045"
     CDS             complement(3007..3717)
                     /locus_tag="NFL43_24045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB63813.1"
                     /translation="MLYWKKMPSLWIGNRIAEFSDLDTAKAIAALKIYLTFCLFCKESD
                     SGHRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNISPTARKKIYTVDVLENHND
                     GWCKLPFKGVVDEDKKISAFQSMHNRYPFELLALQTYMYLLYARDNNSDYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRVVKKSIENIPLEMFHDSYYFYIKTGSKSALTYRR
                     KSEPPVIPEADLPF"
                     /name="hypothetical protein"
     gene            complement(4131..4646)
                     /locus_tag="NFL43_24050"
     CDS             complement(4131..4646)
                     /locus_tag="NFL43_24050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675351.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WGB63810.1"
                     /translation="MKFYTISSRYIEYLKGFEDKVPNSEDPNYQNPKAFIGIVLEIQGH
                     KYLAPLTSPKPWHSTIKESSPSFFKLHENGVPENQLGLINLKFMIPIIEAEVSLLDLNG
                     MPNTAYKRMLYKQLQFIRVNSDKIAEKSELLRKLVLQGKMQGTCNFSLLEEKYRDFGKE
                     ANDTEEGE"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     Typing          2250..2349
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.02"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          2474..2729
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.574"
                     /coverage="89.0"
                     /evalue="2.65e-108"
     Typing          complement(5285..5857)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.828"
                     /coverage="90.0"
                     /evalue="5.34e-173"
ORIGIN
        1 aaaaagtaaa ggaggaggta ggccttcatt aaactctcca tggattaatt taggaattag
       61 tcgttcaacg tattttagat taaaagctaa agagaaagga aaatgataaa agttcagtta
      121 cctactagag aacatcgtct tcatgagctt aatcttaatt atggcgatgt cgtttttttt
      181 attggtcaga atggtagtgg taaatccagc ctattaaata atctttttca aaaaatagga
      241 tctcaatcat cagtatatgt tttagcgcat agaaaaaata cattcagcag cgacattatt
      301 gatttcagta atagtgagta taaaaatgcg cagggatgga tttttaatga aattaaaggc
      361 agtcaatgta gatacagagt taattatgac tcacagatgg ttgccatacc tatagtaaaa
      421 ttaaaaaaca aagtgatagc cagggcttta agtttcgtag attcatttaa atcaaataac
      481 aatcagccgg cagagttaat aaagtcagag gttgatgttc taaacatggt ttttgctgat
      541 gccaaattat ctattgagtt ctttctagat gatgaagcca acgttatggc aaggaatatt
      601 aaaggtgaaa atcctgatgt ttatcctata tcaatgcttt ctgacggtga aaaaagtgca
      661 ctaattattg ccagtgagat tatttgcgct gatgaaaaca caactatttt cttagatgag
      721 cctgagcgac atatgcacag aagcattgtg tctccgctgc tttcatcttt aatgaaatat
      781 cgtagagatt gtgttttttt tgttgccacc cacgagttaa gcttgcctgc gttttttgat
      841 aacgtgaaag tggttaacgt taaaaactgc tatttttccg aacaaagaga accgatatac
      901 tgggatttca atgttgttga ggattatgac gaattattca atggtgttga tgagcaaact
      961 aaaatagata tacttggcgc tagggataag gttctatttg ttgaaggtgt tacgtctagc
     1021 cttgaccgtg atttatattc ggccatattt cctatggttt cagttgtatc taaacaaaaa
     1081 tgtgatttgg ttgaattggc ggtaaaaggc ttgagactaa atgacgaaat tcatcgagta
     1141 tcggcgtttg gtatcattga taatgataac aaggtgcagg cgaaggtcga taacttaaag
     1201 aaagacttca tttttagtct cgacgttcat tctattgagt cgatttatta tcatcctaga
     1261 atgattaagt ttgtcattga ctttgtaaaa gaggctaatg ggatagataa tgttgatgcc
     1321 ttatttatgg aaattcatga cttcgctatt gatgccataa atgaaaagcg cgatcactta
     1381 tgctgccgtg cagttgaaaa aacaataagg gcagacttaa tgtcggccat accaaaacag
     1441 caagatatta agaaccgcat taagtttaat aaagaaattg atattgaatg ttatgttaat
     1501 aaagaaattg ctgcatttga tgcaatgatc gcggaacgaa atttggatgc gttagtctca
     1561 cgctacccta tccgagaaac aaatttgttg gcacatgtag ctaaaaaatg tggttttgcc
     1621 gatcgctcta gatatgagtt aaacgtgatt cgtacgatca agagtaatgc tgacgctaga
     1681 gcatttgttt tatccctcct cggagggtta gatgaagcta ttttgggatg ttcagatacg
     1741 gaaaatagcc cagctgatac ccatacagtt tttgctatgt gagactaaac aacctatatc
     1801 agataacagc cctgcttttg cggggctttt tgtttgtgcg tgacttgacc gcgatgtacg
     1861 atagttgctg tattaagtca gtatacactc cgctatcgct acgtgactgg gtcagggctg
     1921 cgccccgaca cccgttaaaa cccgctgacg cgccctgacg ggcttgtctg ctgacgaaaa
     1981 tgctcacggg caagccgtga ccgccttcgt cagcttcgtt atgttcctgt ttcattttcg
     2041 gcctcaaagt gaacctggat gctgttctgg agttcttctg cgagttcgtg cagtcgttca
     2101 cacatggccg cctgtacgtc ggcatccaga gcatccagtt tttcaagcag tgtcaggctc
     2161 tggcttttga taaatcgcgc catattcagc gcagtttgtt gctgtttgtt caccttccgt
     2221 tgttctccgt cagtaccggg tgtcgggtgg accctgacta ggtggtaatt gtaagacgtt
     2281 gcgggcgacg gtattacaat tgcacatcct gtcctgtttt ttttaggacg tatcatggca
     2341 cagcatatca actgataaat aatccctgtg cagtgcagcc gctgttgcat aaaatttcgc
     2401 tctgcgtcga gtgtttctta atcaataatt ccgctgatac tccggaaaaa cgcgagtctg
     2461 ttctcatgcc tgaaatgccc acaccccacg caaaaacaat tttttgctga tttttcttta
     2521 taaatagaga gttatgacaa attagtttct cttgctctct ttgtgatatt taaaaaagcg
     2581 gtgtcggcgc ggctacaaca ccgcgccgac accgctttgt aggggtggta ctgactattt
     2641 tcataaaaaa catcatttta tattaggggt gctgctagcg gcgcggtgtg tttttttaca
     2701 ggatgcccct gggggcgctg ctaggggtgt ctgttcagat atgtagcaat gagtcaggga
     2761 ttcacgaact gaaaatgtcc gaaaatgtgt ctcatgggca ccgtatgcgc ccaaaccgtt
     2821 cgccattcac tttcatgcat agctatgcag cgagctgaaa acgatcctga cgcatttttt
     2881 cggtttacct tggggaaaac atctcttttt gcggtatttg cgtcagaatc gcgttcagcg
     2941 cgtttctgag gtgcgggcaa cggatgttat gttcaatccg tgtgataatt ggtgtggaat
     3001 aaacaatcaa aatggtaagt cggcttctgg aataactggc ggttctgatt tccttctgta
     3061 ggttagagcg ctcttactgc ctgtttttat atagaaatag tacgagtcat gaaacatctc
     3121 tagaggtatg ttttctatgg attttttcac aactctatca agcaaaccta tatggataag
     3181 gtaggtgatt gctttgttta gttcaggtaa tttgcatttc aattttttgc atatggtctt
     3241 tttcctagcc agtgtgtagt cgctgttatt atcacgagcg taaagaagat acatgtaagt
     3301 ttgtaaggct agtaactcaa agggatatct gttgtgcatg gattgaaatg cacttatttt
     3361 tttgtcctcg tcgacaactc ctttaaatgg aagcttgcac catccatcat tatgattttc
     3421 tagcacatcc acggtataaa tcttttttcg tgcagtcggc gatatgtttt ttatcagctc
     3481 ttttgcataa agaattttaa ggccttcgtt caccaaggaa cggcttaatg acgctatctc
     3541 gcaaaggttg ctaaaggtta actcaaccgt tctgtggcca gagtctgact ctttgcaaaa
     3601 caggcagaat gttaaataaa tttttaatgc cgctatagct tttgctgtat caagatcgct
     3661 gaattcagcg atcctatttc ctatccatag tgaaggcatt tttttccagt acagcatgaa
     3721 tcacctcaag gccaagtttt gaaagatgaa atagaccaat cccaatatag aaagtgagag
     3781 cacaaggtta gttattaccg ctgcgacttt cgcaagcctc tcaaccagac acacgccttt
     3841 ctcaaacatt tttcacccct cgtaatcgct tcttgttgtt tttattatct cagggtgtga
     3901 aggcgttgta acgccttcac aaaaatctat ctagaaagat aaaagtgatg ttaatttttt
     3961 atcttgttgt ttttaacggt tttttatttg agttttggta tttgtattaa tcataatatg
     4021 gttcaccgtg aactatgtat gtgagtcgaa ccgttgagtt ttgaatatta gacctgaata
     4081 gtgtccaaga tcactcggtt tcggacacta ttcaggatgg caatgaagcg ttactcgcct
     4141 tcttccgtgt cattagcttc tttgccgaaa tctcggtatt tttcttctaa cagggaaaaa
     4201 ttacatgttc cttgcatttt tccttgcagg acgagcttcc ttaaaagctc tgatttctca
     4261 gctattttgt ctgaatttac acgaataaac tggagctgct tatagagcat tctcttgtag
     4321 gcggtattcg gcataccgtt caagtcaagt aaggatactt cggcttcgat gattggaatc
     4381 atgaacttca gattaatcaa tccgagctga ttttcgggga caccattttc atggagctta
     4441 aagaagctag gcgatgattc tttaatagtg ctatgccatg gctttgggga tgttaaaggg
     4501 gctagatact tatgcccttg aatctctaac acaatgccaa tgaaagcttt cggattctga
     4561 tagttaggat cttcgctatt gggaactttg tcttcgaatc cctttaggta ttcaatgtat
     4621 ctgcttgata tagtgtaaaa tttcattttt ttctcgtaaa aaaggcgact gtgtagtcgc
     4681 ctcttttact gtattacttt aaggtagtaa atgacctaaa tttctagctg cacttaaggt
     4741 agcaaatcac ctgaatttct agctgcactt aaaggtagca aatcacctga atttctagct
     4801 gcacttaagg tagcaaatca cctgaatttc tagctgcact taaaggtagc aaatcacctg
     4861 aatttctagc tgcacttaag gtagcaaatc acctgaattt ctagctgcac ttaaaggtag
     4921 caaatcacct tgattcgagt atacctgatc ttcgcctagg cttacaacta ggtaacttgc
     4981 agctgtgtag ttgtagccct tgccgctgta tcccctcaaa atgtcatttg aggctttttt
     5041 aaagtactga ttccagagtt gactgttttt ttcatcagtt cagtgtgggg ggggtaagtt
     5101 gggttatgac atgaatcaaa aaggatctgc ttgagatcct ttttttctac gcgtaatctc
     5161 ttgctctgaa aacgaaaaaa ccacctgggg aggtggtttt tcgatggttc agtaagttgg
     5221 ggaacttctg aaccgtggta acagggtgta caagaccgct gccaccaaat tcgtccttcc
     5281 agtttagccg tagtttggtt ctaacttcaa gaactctgca tcagtaatct cttgtacacc
     5341 ccttaccaat ggccgcagcc agtggcgata agtcgtgtct ttccgggttg gactcaagat
     5401 gatagttacc ggacaaggcg cagcggtcgg actgaacggg ggggtcgtgc atacagtcca
     5461 gcttggagcg aactgcctac ccggaaccga gtgtcaggcg tggaatgaga taaacgcggc
     5521 cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg cacgagggag
     5581 ccaccagggg gaaacgcctg gtatctttaa gtcctgtcgg gtttcgccac cactgatttg
     5641 agcgtcagat tctgtgatgc ttgtcagggg ggcggagcct atggaaaaac gccagcggcg
     5701 cggccttttg ccctggcttt gcctttttgc tcacatgttc tttccggcct tatcccctga
     5761 ttctgtggat aaccgtatta ccgtctctga gtgagctgat accgctcgcc gcagccgaac
     5821 gaccgagcgc agcgagttag tgagcgagga agcggaagag cgtaggcatt tgcattttct
     5881 ccttacgcat ctgtgcggca tttcacaccg tcaatagcgc acttttcata caatccgcac
     5941 tgataccgca tagttaagtc agtactcaca gcgtcccctc tgcgaggtgc cttctgtgac
     6001 tggttcaggg ggcttgccgc ccccctcaaa tatgcagccg tcattgagaa tgcgctgcgt
     6061 aaaaaattgg gcgccgatgc ggggtattca gggctaattt gcgagaatcc gaaccacctg
     6121 cactggcaga tcaccgtttg gcagcctgag ctctacaccc tcgactgatt agccgactac
     6181 ctcgaccttg gcgcagctaa tgaccgcgaa atcctaccgg actacggttt aggccgtaac
     6241 tgcaccctct tcgataaaac ccgcaagtgg gcttaccgcg ctatccacca aggctggccg
     6301 cagtatgacc aatggctaca agcttgcttt gaacgcgcta aagcctacaa cctgcagttc
     6361 tccgcacctt tagacgagaa cgaagtcatg ggtattgcca aaagtgtagc taagtggact
     6421 aataaaaatt ttacagagtc atcatttgat gattttataa aaaagaccca ttcggcagac
     6481 atccaatctc tatgtgggaa
//
