LOCUS       CP098986                4315 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C15 plasmid unnamed2, complete
            sequence.
ACCESSION   CP098986
VERSION     CP098986.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488711
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4315)
  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  JOURNAL   Unpublished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 4315)
  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-C15
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 115x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:22:52
            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)                     :: 4,876
            CDSs (total)                      :: 4,755
            Genes (coding)                    :: 4,475
            CDSs (with protein)               :: 4,475
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 280
            CDSs (without protein)            :: 280
            Pseudo Genes (ambiguous residues) :: 0 of 280
            Pseudo Genes (frameshifted)       :: 77 of 280
            Pseudo Genes (incomplete)         :: 194 of 280
            Pseudo Genes (internal stop)      :: 58 of 280
            Pseudo Genes (multiple problems)  :: 44 of 280
            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..4315
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C15"
                     /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            complement(join(4228..4315,1..827))
                     /locus_tag="NFL47_24310"
     CDS             complement(join(4228..4315,1..827))
                     /locus_tag="NFL47_24310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243916.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WGB73050.1"
                     /translation="MLNKIQLPDEIKKNTVTNGNSISLIKKLPSQYAHLILSDIPYGIG
                     AEDWDVLHNNSNNAYLGSSPAQKNAGAIFKKRGKPINGWSEADKKIPLEYQQWCEEWAT
                     EWFRVLKPGASAIIFAGRRFSHRCICAMEDAGFNLRDIIAWMRVKAPHRAQRLSCVYER
                     RGDTLNAEKWNGWRVGNLQPTFEPILWFSKPYKIGGTIADNAIIHGVGAYNQDAFVARN
                     GKPENVITAGFSSNESGLHPTQKPVALMKTLIELTTQKGQLVIDPFSGSGSTLVAAKDL
                     GRDYIGFEINPTYVETSIKRLNK"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(1031..1192)
                     /locus_tag="NFL47_24315"
     CDS             complement(1031..1192)
                     /locus_tag="NFL47_24315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WGB73051.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAATGNGFMGVGLE
                     VSCQLRLN"
                     /name="replication initiation protein"
     gene            complement(1848..2042)
                     /locus_tag="NFL47_24320"
     CDS             complement(1848..2042)
                     /locus_tag="NFL47_24320"
                     /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="WGB73052.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2939..3166
                     /locus_tag="NFL47_24325"
     CDS             2939..3166
                     /locus_tag="NFL47_24325"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB73048.1"
                     /translation="MTKLDATRFSRHEGYEVLDLINSFQAKGGGALTLKSQQIIEWMLH
                     ERLPSNIQGRAQVKAWVVDNFSQMKDGYPF"
                     /name="hypothetical protein"
     gene            3232..4227
                     /locus_tag="NFL47_24330"
     CDS             3232..4227
                     /locus_tag="NFL47_24330"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000362418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WGB73049.1"
                     /translation="MEWACLYMMPGGMILFVTLEGCWNMDLTNIEFINDAAINRRRYWT
                     NEIVKLSGHFVNDSSRVEEEIIYEVSKSGSQALLDHLRLCTAIPESYEHDSSEEKLYSK
                     YTDALISECFKFFGLNSIVLTERADAADVEVVCDSYSFVADAKVFRLSRTAKNQKDFKV
                     QAMDGWRNTKDFAMVVCPIYQLPVKSSQIYQQAILRNVCVFTYTHLAVLVKYADIVGSD
                     VRILLEEIFRSVILMNPSKDSVQYWTMINRTMLNYDKRIEKLWIDERIATSEGIYVLKK
                     MAIEYLSSERGRILSMSREEAVRALIKMNKIESRIEQIKKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     Typing          1691..1775
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="100.0"
                     /evalue="3.06e-32"
     Typing          2079..2177
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          2302..2557
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(1121..1680)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.204"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 accaatgtag aaccactgcc actaaaaggg tcaatgacta attgaccttt ttgtgttgtt
       61 aattctataa gtgttttcat taaggctaca ggtttttgtg ttgggtgtaa tccactttca
      121 ttgctggaaa atccagctgt aatgacattt tcaggtttgc catttcttgc tacaaatgca
      181 tcttgattat aagcaccgac accatgaata attgcattat ctgcaattgt gccgccaatt
      241 ttatatggtt tagagaacca tagtatgggt tcaaaggttg gttgtagatt tccaactcgc
      301 catccattcc atttttctgc gtttaatgta tccccgcgcc tttcgtaaac gcaactcaac
      361 ctttgggctc tgtgaggggc ttttactctc atccatgcaa ttatatcgcg aagattgaat
      421 ccagcatctt ccattgcaca tatgcatcga tgagaaaatc ttctgcctgc aaaaataatt
      481 gcactggcac ctggttttaa tactctgaac cattcagtag cccattcttc acaccattgc
      541 tgatattcta atggtatttt cttatcagcc tctgaccatc catttattgg ttttcctctt
      601 tttttaaaaa tagcacctgc gtttttctgc gcagggcttg aacctagata tgcgttattt
      661 gagttattat gtagcacatc ccagtcttct gctcctatcc cataagggat atcactgagt
      721 attaaatgtg catattgtga tgggagtttt tttattaatg atatcgagtt accattggta
      781 acggtattct tttttatttc atcaggtaat tggatcttgt ttaacatcta aattcctgct
      841 ctttcatagc tttaaaaaca cgctgatagt atacgttaaa gtaccttgac gcaggattac
      901 ctttcatcgt agcctttctg aaaagaaaaa accgccttgc agggcggttt tttcaaggtt
      961 caaagaactt gcaggttttt gaaccacggt aactggcttt gtgggagcgc agtcaccaaa
     1021 atctgttctt tcagtttagc cttaactggc aagaaacttc aagaccaact cccataaaac
     1081 cgttaccagt ggctgctgcc agtggcgtta aggcgtgtct taccgggttg gactcaagac
     1141 gatagttacc ggataaggcg cagcggtcgg gctgaacggg gggttcgtgc acacagccca
     1201 gcttggagcg aacgacctac accgaactga gataccaaca gcgtgagcta tgagaaagcg
     1261 ccacgcttcc cgaagggaga aaggcggaca ggtatccggt aagcggcagg gtcggaacag
     1321 gagagcgcac gagggagctt ccagggggaa acgcctggta tctttatagt cctgtcgggt
     1381 ttcgccacct ctgacttgag cgtcgatttt tgtgatgctc gtcagggggg cggagcctat
     1441 ggaaaaacgc cagcggcgcg gccttttgtc ctggctttgc ctttttgctc acatgttctt
     1501 tccggcctta tcccctgatt ctgtggataa ctgtgttacc gtttttgtgt gagtcagtac
     1561 cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg agcgaggaag cggaaaagcg
     1621 cctggacgtg cattttctcc ttacgcatct gtgcggcatt tcacacccgg catggggcac
     1681 ttttcataca atctgcactg atgccgcatg gttaagccag tatacactcc gctgtcgcta
     1741 cgcgactggg tcagggcttc gccccgacac ccgctgacgc gccctggcgg gcttgtctgc
     1801 tgccgaaaac gctcgcggac aagccgtgag cgcctccgtc agcttcgtta tgttcctgtt
     1861 tcactttcag tctcaaagcg aacctggatg ctgttctgga gttcttccgc gagttcgtgc
     1921 agtcgttcgc acatggccgc ctgttcgtcg gcatccagag catccagttt ttcaagcagt
     1981 gtcaggctct ggcttttgat aaatcgcgcc atattcagcg cagtttgttg ctgtttgttc
     2041 accttccgtt gttctccgtc agtaccgggt gtcgggtgga ccctgaccag gtggtaattg
     2101 taagacgttg cgggcgacgg tattacaatt gcacatcctg tcctgttttt ttaggacgta
     2161 tcatggcaca gcatatcaac tgataaataa tccctgtgca gtgcagccgc tgttgcataa
     2221 aatttcgctc tgcgtcgagt gtttcttaat caataattcc gctgatactc cggaaaaacg
     2281 cgagtctgtt ctcattcctg aaatgcccac accccacgca aaaacaattt tttgctgatt
     2341 tttctttata aatagagagt tatgacaaat tagttcttct tgctctcttt gtgatattta
     2401 aaaaagcggt gtcggcgcgg tgttgtagct gcgccaacac cgctttttag gggtggtact
     2461 gactattttc ataaaaaaca tcattttata ttaggggtgc tgctagcggc gcggtgtgtt
     2521 tttttacagg acgcccctgg gggcgctgct aggggtgtct gttcagatat gtagcaatga
     2581 gtcagggatt cacgaactga aaatgtccga aaatgtgtct catgggcacc gtatgcgccc
     2641 aaaccgatcg ccattcactt tcatgcatag ctatgcagtg agctgaaagc gatcctgacg
     2701 catttttccg gttttcgctt ggtaaaacat ctctttttgc ggtgttcgcg gcagaatcgc
     2761 gttcagcgcg ttttagcggt gcgcgtaatg cgacgttatg gtaaatgagg ctgttgagtt
     2821 attaatgtta tgtcgtaatg tacgtatata attcaggcga agatgagaaa agatgaatag
     2881 atctgatatg aattaccatg attactcatg gacggctgta caaggagata atccacgaat
     2941 gactaagcta gatgccacgc gctttagccg tcatgagggt tatgaggtgt tagatttgat
     3001 taattccttc caggccaaag ggggtggtgc tctgacgcta aaatcacagc agattatcga
     3061 gtggatgcta catgaacgcc tgccatccaa tatccagggg cgagctcagg ttaaagcgtg
     3121 ggtggttgat aacttctcgc aaatgaagga tggttatcca ttctgataaa aagcccgcta
     3181 cagcgggctt tttcatgagc tgtgctcaat gaggcattat ggtaaattgt tatggagtgg
     3241 gcatgtctgt atatgatgcc tggtggtatg attttgtttg taacactgga aggttgttgg
     3301 aatatggatt taacaaatat tgaatttatt aatgatgccg caataaatag gaggcgttac
     3361 tggactaatg aaattgtcaa attaagtggg cattttgtta atgactccag tagggttgag
     3421 gaggaaatta tttatgaagt ttccaaatct ggatctcagg ctttattgga ccaccttcga
     3481 ttatgcacag ccattcctga atcatatgag catgattcaa gcgaagaaaa gttatattca
     3541 aagtatacag acgcattgat ttctgaatgt tttaagtttt ttggtttgaa tagcattgtg
     3601 ttaactgaga gggctgatgc ggcagatgta gaagttgtat gtgatagtta ttcttttgtt
     3661 gctgatgcta aagtttttcg gttaagtcga acagctaaaa atcagaaaga ttttaaagtt
     3721 caagcaatgg atggttggag gaatactaaa gatttcgcca tggttgtttg tccaatatat
     3781 cagcttccag ttaaatcaag tcaaatatat caacaagcta ttcttcgcaa tgtgtgtgtg
     3841 tttacttata ctcatttagc tgttctggta aagtatgctg acattgttgg tagtgatgtt
     3901 aggatattgt tagaggaaat attcagatct gtcatactca tgaatccaag taaggatagt
     3961 gtgcagtact ggactatgat taatagaacg atgttgaatt atgataagag aatagaaaaa
     4021 ctttggattg atgagcgaat tgctacatca gagggtatct atgtgctgaa aaagatggca
     4081 atagaatacc tctcttccga gagaggtaga attctaagca tgagcagaga agaggctgta
     4141 agagctttga ttaaaatgaa taaaattgaa agtagaattg agcagattaa aaaagtgaca
     4201 gataataata ttctgtcact taaataatta tttgtttaat ctctttatac tggtctctac
     4261 atatgtaggg tttatttcga aaccaatata atccctacct aaatctttcg ctgct
//
