LOCUS       NZ_CP076691             1640 bp    DNA     circular CON 18-JUL-2023
DEFINITION  Escherichia coli strain S21EC plasmid pS21EC_C, complete sequence.
ACCESSION   NZ_CP076691
VERSION     NZ_CP076691.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19700015
            Assembly: GCF_018972225.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1640)
  AUTHORS   Alvarez-Fraga,L., Phan,M.D., Goh,K.G.K., Nguyen,T.K.N.,
            Hancock,S.J., Allsopp,L.P., Peters,K.M., Forde,B.M., Roberts,L.W.,
            Totsika,M., Beatson,S.A., Ulett,G.C. and Schembri,M.A.
  TITLE     Differential Afa/Dr fimbriae expression in the multidrug resistant
            Escherichia coli ST131 clone
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1640)
  AUTHORS   Alvarez-Fraga,L., Phan,M.D., Goh,K.G.K., Nguyen,T.K.N.,
            Hancock,S.J., Allsopp,L.P., Peters,K.M., Forde,B.M., Roberts,L.W.,
            Totsika,M., Beatson,S.A., Ulett,G.C. and Schembri,M.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUN-2021) School of Chemistry and Molecular
            Biosciences, University of Queensland, Building 76 Cooper road,
            Brisbane, Queensland 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUN-2021
            Assembly Method                   :: flye v. 2.5
            Assembly Name                     :: S21EC
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 222x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/18/2023 04:17:19
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,149
            CDSs (total)                      :: 5,034
            Genes (coding)                    :: 4,863
            CDSs (with protein)               :: 4,863
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 171
            CDSs (without protein)            :: 171
            Pseudo Genes (ambiguous residues) :: 0 of 171
            Pseudo Genes (frameshifted)       :: 72 of 171
            Pseudo Genes (incomplete)         :: 117 of 171
            Pseudo Genes (internal stop)      :: 34 of 171
            Pseudo Genes (multiple problems)  :: 44 of 171
            Pseudo Genes (short protein)      :: 3 of 171
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP076691.1.
            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..1640
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S21EC"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS21EC_C"
                     /geo_loc_name="United Kingdom:Manchester"
                     /collection_date="2009"
     gene            208..333
                     /locus_tag="KQ260_RS25420"
                     /old_locus_tag="KQ260_25375"
     CDS             208..333
                     /locus_tag="KQ260_RS25420"
                     /old_locus_tag="KQ260_25375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     gene            complement(778..1345)
                     /locus_tag="KQ260_RS25425"
                     /old_locus_tag="KQ260_25380"
                     /pseudo=""
     CDS             complement(778..1345)
                     /locus_tag="KQ260_RS25425"
                     /old_locus_tag="KQ260_25380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(89..187)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          1425..1533
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.182"
                     /coverage="100.0"
                     /evalue="4.23e-47"
     Typing          287..547
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 atgcaagcct cgccagccgt gatttttgcc agatttcgtg gttttcacgt tcaacagctc
       61 catcgtgttt ttgccgtccg ttcaccgtta aaacgcctca gaaatcggga caggatgtgt
      121 aatcgtataa ccgcgcatgc acgccgatac gattaccact tggtcagggc ttcaccccga
      181 caccccgcat cagtgcgtaa gtgctcaatg tggcttccgg ttctcttccg cttcctcgtc
      241 gattcgctcg ctacgctcgg tcatcgactt gcggcgagcg ggatcacctc tcgcatgttg
      301 tcggtgatcc cggtgttgtt cttttgggga tgagtcgcca gatagcccct caaacgcgct
      361 caaaagctct cagacgcacg aaacgggttt tagatgcccg ccagggcatg gaaggcgcga
      421 aaaacgctta cagaggctct caggaggtca agcgcgccga tacccctaac caggggcttt
      481 caggtcgcca ggaaccgcgc cagccccctg caaagcccat ttgcacggaa caggcagcca
      541 tgcggttggt aggtggtcgt agaccgtcgg tgttgcagcg atgggggtct ggggttctcc
      601 ccagacggtt tccggtagcg ctcaaggcgc tgccggaacc gtggcggctc ggttttttct
      661 ggagaacggg gagcaaaaac acgcaaagga ttttgaggcg gcaaaagagc aatgcaggat
      721 agacaatcat ggtcagaacg ttaacacgta gcccctgatt gtccgcctgc cgctagctca
      781 atttgaaaac atggccatga ttcggcgctg aatatcaccg tctttgttga ccagtgtttt
      841 agtgacaaac gctgcatggt ttttcgtagt gttgtatccc ttccagactt catgtggatc
      901 gagggcatac gcacaaacct taccagcaac ggggattcta actaatgcat tttttgattc
      961 taagtaattg agccaccgaa taattgtgct tctgctaact ccaagttttt cagctaggaa
     1021 ttgctgatcc gcaacgacag cgccacacgt aggatcgata tgctccgcta aaaatgagta
     1081 cagcttcagt gctgatatgc cttggctatc cttcagcagc tgcaacgaca gcgccacacg
     1141 taggatcgat atgctccgct aaaaatgagt acagcttcag tgctgatatg ccttggctat
     1201 ccttcagcag ctctcgaaca cgttcccaac cttttgggga tacctgtgta aaccttgaat
     1261 ttttctttgc ttcttcgaga tcctcggtgt ttttctttgc ctcatctgaa agttgtttca
     1321 gtcgtttttc tgaatcaata aacatgattt tttccctctg aaaatcccat gcactaacgt
     1381 tggtttaaat ctaagccatc atgacacatc tgtgcaacac cttgttgcgt gttgtcgcat
     1441 cctggatgcg acaacgttgt gtcatcctgg atgcgacagg taaataaaaa acacactaaa
     1501 aaaacaacca cttacaaatc ggcgtaaaag atctattcta ggcaagggtg ttgcgtgcaa
     1561 cgcaacgccc tttgggggtg tcggggcgaa gccctgaccc agtcacgtag cgatagcgga
     1621 gtgtatactg gcttactcct
//
