LOCUS       NZ_CP059336             1982 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Escherichia coli strain MS10860 plasmid pMS10860D, complete
            sequence.
ACCESSION   NZ_CP059336
VERSION     NZ_CP059336.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10141462
            Assembly: GCF_030991405.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1982)
  AUTHORS   White,R.T.
  TITLE     Escherichia coli ST410 strain MS10860 plasmid pMS10860D
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1982)
  AUTHORS   White,R.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUL-2020) School of Chemistry and Molecular
            Biosciences, The University of Queensland, Building 76, Cooper Road,
            St Lucia, QLD 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Flye v. 2.5
            Assembly Name                     :: MS10860_QU059_ST1193
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 177.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/31/2023 16:40:09
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,074
            CDSs (total)                      :: 4,956
            Genes (coding)                    :: 4,697
            CDSs (with protein)               :: 4,697
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 259
            CDSs (without protein)            :: 259
            Pseudo Genes (ambiguous residues) :: 0 of 259
            Pseudo Genes (frameshifted)       :: 110 of 259
            Pseudo Genes (incomplete)         :: 161 of 259
            Pseudo Genes (internal stop)      :: 43 of 259
            Pseudo Genes (multiple problems)  :: 50 of 259
            Pseudo Genes (short protein)      :: 4 of 259
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059336.1.
            Bacteria and source DNA available from Escherichia coli.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..1982
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MS10860"
                     /serotype="O75:H5"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMS10860D"
                     /geo_loc_name="Australia: New South Wales"
                     /collection_date="2007"
     gene            complement(910..1899)
                     /locus_tag="MS10860_RS25310"
                     /old_locus_tag="MS10860_D0002"
     CDS             complement(910..1899)
                     /locus_tag="MS10860_RS25310"
                     /old_locus_tag="MS10860_D0002"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_011117490.1"
                     /translation="MKNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYNPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(491..569)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="80.0"
                     /evalue="8.21e-29"
     Typing          831..909
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="80.0"
                     /evalue="8.21e-29"
     Typing          993..1184
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.83e-96"
ORIGIN
        1 tttctacagg tggtcacgcc cccgaacgat tgccctcgtt gcgggggtcg cttttaacgc
       61 gaccacttcc gacagaatac ttctaaaccc atttcggagc aaatgtgccc tcaagccttg
      121 cgggacaagg gctggaggcc aatttgaatc ctagagttat cccttaagta taaatacaag
      181 gatcgcgcgc gagatttgct tgaattttga gctggatttt cagcaaccca aaacctccca
      241 accccaccca cttacaccca tctcatccac agactttcac cccgattttg tgaacaacaa
      301 aaaaccgtct tgcaggtggt tggcctcact ccgtgacacc aaccaccatc cccagcgttt
      361 tccccgtgcc gtcgtcaatc acaaaatcgg aacccacgcc ggaggcgcgg ggccccgcga
      421 ttttctgttt gacgaattcg ggaacggtga gcggtacgcg gaattttttc gcgtgccgtg
      481 aggcgttggc ggggtgtcgg ggcgaagccc tgaccaggtg gggaatgtct gagcgagcgt
      541 gcgcggtccg acattcccac atcctgtccc gatttctgcg ggtttgtgtc accggaacac
      601 tggcgcaatg tcggcagttt ttgcgccgcg ccgccctcca cgtaagcgcg cagttctggc
      661 aaccggacag caaatcattc tgccgttttc gtgccacagc tgttccgcgc gatcgacaaa
      721 ctggcagtcg gggaatctca cgaagtgcgc actcatacaa actacacttc gtttcgtttg
      781 tcgtgcggtc tgcgacgctc aaaaaaccga gaaacggcgg gaattttcgg gacaggatgt
      841 gggaatgtcg gaccgcgcac gctcgctcag acattcccca cctggtcagg gcttcgcccc
      901 gacaccccgc tagcctgatt cagttttatc tttcgtcggt gagcgacggt actttctgac
      961 ctcggttttc cactcaaacg cgattcgtga accgtcatcg tcgccctcgg aaatatcatc
     1021 cccgatcacc atgtcggcgt cggtttcctg atcgagtttc agcacgtctt tgagtgcgcc
     1081 gccggtcgcc acaaagcggc gcttgtgcgt ctggcgggtc agttcgagga accattcagg
     1141 atcggccacc atgtcagccg gcttcgtgga atatttcagg gtttcggcca ctgcgccgcg
     1201 caccagttca gcggtcgcgc aggctaagga ctcgccatcc tttggcttac ggggttttac
     1261 tgcccggaca tcaacattcg ggttgtaact gacccgcagg cactcccgcc agagttcaac
     1321 ccagcgagca tgttttacgt acccgtcacc agatagcatt gagggcggca ccatcatcag
     1381 ggtgtggaag tggggatgcg cgctgccgtc gctgccgcgg gtaacttccg ttgtgcggat
     1441 ccagccctga acaggcagga actccttgcg aaccttcata cgctgaaaag ctgcattcat
     1501 ccggttcagc atctcgccca gttccccaat cgcacagttg cgcacggtca gggtcaggaa
     1561 catccagcgg gcatcagggt aatccgccac gatacgcggc agggactggt agaaacgggc
     1621 ttgccacatc agggagcgcc tccactggca gacaggacag tgccggacac ggcagaaatg
     1681 cgcctcacgc agcctcagac gcgtttctcc ggtttccttg agggtagacc acccgaaacg
     1741 cagtaaaccg ccacaggagg ccatacgagc cccgtagcgc tcatattcgg ccgcaagcag
     1801 gtaaatccct cccacgtcgt cagaaacgct tctgtgtgcg tcccagggcg cgtcagaggg
     1861 ggaataatca gtgaggtact ggagtttagg gtttttcatg cgcaccaccc gattgtgggc
     1921 gatggctcat ctgacgtgtt atcattgcca tatcacctgt gttgtcgtgt cactaattcg
     1981 aa
//
