LOCUS       CP099245                2676 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB11-E4-C04 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099245
VERSION     CP099245.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488535
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  JOURNAL   Unpublished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-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 173x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 20:38:18
            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)                    :: 4,688
            CDSs (with protein)               :: 4,688
            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)              :: 206
            CDSs (without protein)            :: 206
            Pseudo Genes (ambiguous residues) :: 0 of 206
            Pseudo Genes (frameshifted)       :: 75 of 206
            Pseudo Genes (incomplete)         :: 134 of 206
            Pseudo Genes (internal stop)      :: 47 of 206
            Pseudo Genes (multiple problems)  :: 44 of 206
            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-C04"
                     /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(join(2509..2676,1..105))
                     /locus_tag="NFJ71_25080"
     CDS             complement(join(2509..2676,1..105))
                     /locus_tag="NFJ71_25080"
                     /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="WFW44068.1"
                     /translation="MSDVKSDQIIKYLSEKWGGSKCPLCKKGRWNVSDKIFELREFHEG
                     NVVIGAGPIVPIIPVTCDNCGNVVLVNAIISGCLSADNKQDGGSK"
                     /name="hypothetical protein"
     gene            complement(464..787)
                     /locus_tag="NFJ71_25085"
     CDS             complement(464..787)
                     /locus_tag="NFJ71_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="WFW44069.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     gene            1071..1265
                     /locus_tag="NFJ71_25090"
     CDS             1071..1265
                     /locus_tag="NFJ71_25090"
                     /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="WFW44070.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2108..2512)
                     /locus_tag="NFJ71_25095"
     CDS             complement(2108..2512)
                     /locus_tag="NFJ71_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="WFW44067.1"
                     /translation="MSGGNNFKMSQDYEIAQPKKKMAYPILVEEWDFLIGKIESISDDD
                     NIYHTIGSIFLGVAGSALIAALTLDLPSDDGYMPRQILISWYVFWASLICGVLSMFFGR
                     KNKKINRTSAKDIVQQMRLIEKRYEQGSMD"
                     /name="hypothetical protein"
     Typing          complement(797..1033)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.58"
                     /coverage="100.0"
                     /evalue="1.62e-119"
     Typing          1300..1803
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.312"
                     /coverage="95.0"
                     /evalue="3.85e-154"
     Typing          complement(468..787)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="1.92e-62"
ORIGIN
        1 tttgtcagaa acattccaac gccctttttt acacaaggga catttgctcc ctccccactt
       61 ttcagacaaa tatttaatta tttgatctga cttaacatca ctcatattcc ctccaagcat
      121 tccttatact catatattta ttagcgaaca atcacatcac tcaataattt attgatcaag
      181 taactttata gagtacatcc atatctgttt tgtgcgcaaa aaaacataaa tataaaatct
      241 tacatttacc ataataccag tattgtacgc accaccaaaa cgagctgaac gcgattctga
      301 cgcaaatacc gcaaaaagag agattttacc ccggaaaaac cggaaaaatg cgtcagaatc
      361 attttcagct cgctgcatag ctatgcatga aagcgaatgg tgatcacttt gggggcttac
      421 ggtgttcata ccgtctgttt tcgacagttt tctccccggg aagctaatct gccataagcc
      481 tggataacag ggcacggtga tactccgtaa tagcgatcag cacctccgca tactccctgt
      541 ccccgatacg cttgccgtcg ataaagagtt ttttctgtaa cgcccccagt ctcataactt
      601 ctttcagtac ccgatcatca gtcagtgagt taactttctt accgagagct gccgcccgta
      661 aaaaaccgga aacggtcttg ccgcattcag cagccctttt tctgatttcc tggtcttctt
      721 ctgccgtcag acgaacaggg cgactgatag cccgcctgcg cgtattactt ccacttcgtt
      781 ttgtcataaa acatggctcc gtatctgaca tgggtgtcgg ggcaaagccc tgaccaaggc
      841 aattgtaata gcgtgcatgt atgcgcggta taacaattgc acatcctgtc ctgtcagcaa
      901 gctcgaatta ccgacaaagg cacggcagtt ttttggcagt gacagtgttg tctgacagaa
      961 atgcccgtca aaaagccaag cggcagaata gcggcagcaa aacagtcgaa aagtggtacg
     1021 cgatataatc acacaacaca gatgacagac agaacggaga aaacgaaaag atgaacaagc
     1081 agcagcaagc cgtactcaac atggcgggat tcataaaaag tcagagcctg acgctgctcg
     1141 aaaaactgga cgcactcaat gccgacgaac aggccgccat gtgtgagaaa ctgcacgaac
     1201 tcgcagaaga actccagaac agcatacaga cacgctttga agcggaaaat cttaccggga
     1261 tataacgctc cagacaggat gcagaacggc atagaggagc gtaaggagaa aatgtcacat
     1321 aaggcgctct tccgcttcct cgctcactga ctcgctacgc tcggtcgttc gactgcggcg
     1381 agcggtgtca gctcactcaa aggcggtaat acggttatcc acagaatcgg gggataaaac
     1441 cggaaagaac atgtgagcaa aagacaaaga cccagaagaa gggcgcgcgg gaggcgtttt
     1501 tccataggct ccgcccccct gacgagcatc ataaaaaccg acgctcaagt cagaggtggc
     1561 gaaacccgac aggactataa agataccagg cgtttccccc tggaagctcc ctcgtgcgct
     1621 ctcctgttcc tgcctttcgg tttaccaatg tcattccgca gttatggccg cgtttatctc
     1681 attccacgcc tgacactcag ttccgggtag gcagttcgct ccaagctgga ctgtatgcac
     1741 gaaccccccg ttcagtccga ccgctgcgcc ttatccggta actatcgact tgaatccaaa
     1801 ccgagaagac acgacttatc gccactggca gcagccactg gtaaccgaat tagaggagtt
     1861 agccttgaag tcatgcgcct gttaaggcta aactgaaaga acaagttttg gtgactgcgc
     1921 tcctccaagc cagttacctc ggctcaaaga gttggtagct ctgagaacct tcgaaaaacc
     1981 accttgccgg gtggtttttt cgtttcatag acaagagact acgacgacaa gacaaggatc
     2041 tcaagaagat ccttacatta tgccccccct tggcacgccg taacctcgct aaacgttcag
     2101 catccagtta atccatacta ccttgctcgt aacgtttctc tatcaatctc atttgttgca
     2161 caatatcctt cgcagaagtt ctattaatct ttttattctt tctaccaaaa aacatagaaa
     2221 gcactccaca aataaggctt gcccaaaata cgtaccatga aattaatatc tgccttggca
     2281 tataaccatc atctgatggc aaatctaaag ttaatgctgc tatcaatgcc gagccagcca
     2341 cacctaaaaa tatagaacca atcgtatgat atatattatc atcatcacta atactttcta
     2401 ttttccctat taaaaaatcc cattcttcaa caagaatagg gtaagccatt ttcttttttg
     2461 gttgagcaat ttcatagtcc tgagacattt taaaattatt accaccactc actttgagcc
     2521 tccatcttgc ttattgtcag cagataagca ccctgagata atggcattaa caagaacaac
     2581 attcccgcaa ttatcacaag ttacaggaat aattgggact atcggacctg ccccaataac
     2641 aacattacct tcatgaaatt ctcttagttc aaaaat
//
