LOCUS       CP099248                2676 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB11-E4-C03 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099248
VERSION     CP099248.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488534
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2676)
  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  JOURNAL   Unpublished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 2676)
  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                     :: RHB11-E4-C03
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 146x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 20:13:24
            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)                     :: 5,019
            CDSs (total)                      :: 4,894
            Genes (coding)                    :: 4,689
            CDSs (with protein)               :: 4,689
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 205
            CDSs (without protein)            :: 205
            Pseudo Genes (ambiguous residues) :: 0 of 205
            Pseudo Genes (frameshifted)       :: 75 of 205
            Pseudo Genes (incomplete)         :: 134 of 205
            Pseudo Genes (internal stop)      :: 46 of 205
            Pseudo Genes (multiple problems)  :: 44 of 205
            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..2676
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB11-E4-C03"
                     /isolation_source="Pooled sediment sample collected from
                     floor of cattle farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(313..507)
                     /locus_tag="NFJ70_25080"
     CDS             complement(313..507)
                     /locus_tag="NFJ70_25080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="WFW39381.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            791..1114
                     /locus_tag="NFJ70_25085"
     CDS             791..1114
                     /locus_tag="NFJ70_25085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="WFW39382.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            1473..1745
                     /locus_tag="NFJ70_25090"
     CDS             1473..1745
                     /locus_tag="NFJ70_25090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001286144.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFW39379.1"
                     /translation="MSDVKSDQIIKYLSEKWGGSKCPLCKKGRWNVSDKIFELREFHEG
                     NVVIGAGPIVPIIPVTCDNCGNVVLVNAIISGCLSADNKQDGGSK"
                     /name="hypothetical protein"
     gene            1742..2146
                     /locus_tag="NFJ70_25095"
     CDS             1742..2146
                     /locus_tag="NFJ70_25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000014067.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFW39380.1"
                     /translation="MSGGNNFKMSQDYEIAQPKKKMAYPILVEEWDFLIGKIESISDDD
                     NIYHTIGSIFLGVAGSALIAALTLDLPSDDGYMPRQILISWYVFWASLICGVLSMFFGR
                     KNKKINRTSAKDIVQQMRLIEKRYEQGSMD"
                     /name="hypothetical protein"
     Typing          546..782
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.58"
                     /coverage="100.0"
                     /evalue="1.62e-119"
     Typing          complement(3..279)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.606"
                     /coverage="93.0"
                     /evalue="4.24e-94"
     Typing          complement(2200..2676)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.235"
                     /coverage="95.0"
                     /evalue="3.87e-119"
     Typing          792..1111
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="1.92e-62"
ORIGIN
        1 tagtcctgtc gggtttcgcc acctctgact tgagcgtcgg tttttatgat gctcgtcagg
       61 ggggcggagc ctatggaaaa acgcctcccg cgcgcccttc ttctgggtct ttgtcttttg
      121 ctcacatgtt ctttccggtt ttatcccccg attctgtgga taaccgtatt accgcctttg
      181 agtgagctga caccgctcgc cgcagtcgaa cgaccgagcg tagcgagtca gtgagcgagg
      241 aagcggaaga gcgccttatg tgacattttc tccttacgct cctctatgcc gttctgcatc
      301 ctgtctggag cgttatatcc cggtaagatt ttccgcttca aagcgtgtct gtatgctgtt
      361 ctggagttct tctgcgagtt cgtgcagttt ctcacacatg gcggcctgtt cgtcggcatt
      421 gagtgcgtcc agtttttcga gcagcgtcag gctctgactt tttatgaatc ccgccatgtt
      481 gagtacggct tgctgctgct tgttcatctt ttcgttttct ccgttctgtc tgtcatctgt
      541 gttgtgtgat tatatcgcgt accacttttc gactgttttg ctgccgctat tctgccgctt
      601 ggctttttga cgggcatttc tgtcagacaa cactgtcact gccaaaaaac tgccgtgcct
      661 ttgtcggtaa ttcgagcttg ctgacaggac aggatgtgca attgttatac cgcgcataca
      721 tgcacgctat tacaattgcc ttggtcaggg ctttgccccg acacccatgt cagatacgga
      781 gccatgtttt atgacaaaac gaagtggaag taatacgcgc aggcgggcta tcagtcgccc
      841 tgttcgtctg acggcagaag aagaccagga aatcagaaaa agggctgctg aatgcggcaa
      901 gaccgtttcc ggttttttac gggcggcagc tctcggtaag aaagttaact cactgactga
      961 tgatcgggta ctgaaagaag ttatgagact gggggcgtta cagaaaaaac tctttatcga
     1021 cggcaagcgt atcggggaca gggagtatgc ggaggtgctg atcgctatta cggagtatca
     1081 ccgtgccctg ttatccaggc ttatggcaga ttagcttccc ggggagaaaa ctgtcgaaaa
     1141 cagacggtat gaacaccgta agcccccaaa gtgatcacca ttcgctttca tgcatagcta
     1201 tgcagcgagc tgaaaatgat tctgacgcat ttttccggtt tttccggggt aaaatctctc
     1261 tttttgcggt atttgcgtca gaatcgcgtt cagctcgttt tggtggtgcg tacaatactg
     1321 gtattatggt aaatgtaaga ttttatattt atgttttttt gcgcacaaaa cagatatgga
     1381 tgtactctat aaagttactt gatcaataaa ttattgagtg atgtgattgt tcgctaataa
     1441 atatatgagt ataaggaatg cttggaggga atatgagtga tgttaagtca gatcaaataa
     1501 ttaaatattt gtctgaaaag tggggaggga gcaaatgtcc cttgtgtaaa aaagggcgtt
     1561 ggaatgtttc tgacaaaatt tttgaactaa gagaatttca tgaaggtaat gttgttattg
     1621 gggcaggtcc gatagtccca attattcctg taacttgtga taattgcggg aatgttgttc
     1681 ttgttaatgc cattatctca gggtgcttat ctgctgacaa taagcaagat ggaggctcaa
     1741 agtgagtggt ggtaataatt ttaaaatgtc tcaggactat gaaattgctc aaccaaaaaa
     1801 gaaaatggct taccctattc ttgttgaaga atgggatttt ttaataggga aaatagaaag
     1861 tattagtgat gatgataata tatatcatac gattggttct atatttttag gtgtggctgg
     1921 ctcggcattg atagcagcat taactttaga tttgccatca gatgatggtt atatgccaag
     1981 gcagatatta atttcatggt acgtattttg ggcaagcctt atttgtggag tgctttctat
     2041 gttttttggt agaaagaata aaaagattaa tagaacttct gcgaaggata ttgtgcaaca
     2101 aatgagattg atagagaaac gttacgagca aggtagtatg gattaactgg atgctgaacg
     2161 tttagcgagg ttacggcgtg ccaagggggg gcataatgta aggatcttct tgagatcctt
     2221 gtcttgtcgt cgtagtctct tgtctatgaa acgaaaaaac cacccggcaa ggtggttttt
     2281 cgaaggttct cagagctacc aactctttga gccgaggtaa ctggcttgga ggagcgcagt
     2341 caccaaaact tgttctttca gtttagcctt aacaggcgca tgacttcaag gctaactcct
     2401 ctaattcggt taccagtggc tgctgccagt ggcgataagt cgtgtcttct cggtttggat
     2461 tcaagtcgat agttaccgga taaggcgcag cggtcggact gaacgggggg ttcgtgcata
     2521 cagtccagct tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg aatgagataa
     2581 acgcggccat aactgcggaa tgacattggt aaaccgaaag gcaggaacag gagagcgcac
     2641 gagggagctt ccagggggaa acgcctggta tcttta
//
