LOCUS       NZ_CP026493             1552 bp    DNA     circular CON 16-JUN-2024
DEFINITION  Escherichia coli strain HS13-1 plasmid pHS13-1-Col, complete
            sequence.
ACCESSION   NZ_CP026493
VERSION     NZ_CP026493.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN08409128
            Assembly: GCF_002953435.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1552)
  AUTHORS   Li,R., Xie,M., Chan,E.W.C. and Chen,S.
  TITLE     Rapid resolution of complete sequences of chromosome and plasmids
            for MDR bacteria using the MinION sequencing platform
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1552)
  AUTHORS   Li,R., Xie,M. and Chen,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JAN-2018) Department of Applied Biology and Chemical
            Technology, The Hong Kong Polytechnic University, 11 Yuk Choi Road,
            Hong Hom, Kowloon 999077, Hong Kong
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2017
            Assembly Method                   :: Canu v. 1.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology             :: MinION; Illumina NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_002953435.1-RS_2024_06_15
            Annotation Date                   :: 06/15/2024 03:19:20
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,483
            CDSs (total)                      :: 5,376
            Genes (coding)                    :: 5,111
            CDSs (with protein)               :: 5,111
            Genes (RNA)                       :: 107
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 80
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 265
            CDSs (without protein)            :: 265
            Pseudo Genes (ambiguous residues) :: 1 of 265
            Pseudo Genes (frameshifted)       :: 107 of 265
            Pseudo Genes (incomplete)         :: 171 of 265
            Pseudo Genes (internal stop)      :: 58 of 265
            Pseudo Genes (multiple problems)  :: 60 of 265
            Pseudo Genes (short protein)      :: 1 of 265
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP026493.1.
            Bacteria and source DNA available from ShengChen Lab, PolyuU, Hong
            Kong.
            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..1552
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="HS13-1"
                     /isolation_source="faecal sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pHS13-1-Col"
                     /geo_loc_name="China:Shenzhen"
                     /collection_date="2017"
                     /collected_by="Miaomiao Xie"
     gene            1..585
                     /locus_tag="C3K24_RS29635"
     CDS             1..585
                     /locus_tag="C3K24_RS29635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001490767.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="rep protein"
                     /protein_id="WP_199778601.1"
                     /translation="MCKCNTVTRDDIPFAIWSGLRPDTPYQCVRAQCGFRFSSASSPTR
                     SLTFGRWGCGERCHLSHVVGDSAVVLSGMSRQIALQTRSEALRRTRRGLNARQGMEGAK
                     NAYRAFQEVRRADTPSQGLSGRQEPRQPPAKPICTVQAVTRLVGGRRPSVLQRWGSGVL
                     PRRFPVALKALPEPWRLGRSGDRGAKTRKGF"
                     /name="rep protein"
     gene            complement(667..1143)
                     /locus_tag="C3K24_RS27915"
                     /old_locus_tag="C3K24_27910"
     CDS             complement(667..1143)
                     /locus_tag="C3K24_RS27915"
                     /old_locus_tag="C3K24_27910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1223..1331
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          177..437
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="3.95e-106"
ORIGIN
        1 atgtgcaaat gtaataccgt cacccgcgac gatattccgt ttgccatctg gtcagggctt
       61 cgccccgaca ccccgtatca gtgcgtacgt gctcaatgtg gtttccggtt ctcttccgct
      121 tcctcgccca ctcgctcact aacgttcggt cgctggggct gcggcgagcg gtgccacctc
      181 tcgcatgttg tcggtgattc cgctgttgtt ctttcgggga tgagtcgtca gatagccctt
      241 caaacgcgct cagaagctct cagacgcacg aggcggggtt taaatgcccg tcagggcatg
      301 gaaggcgcga aaaacgctta cagagcgttt caggaggtca ggcgcgccga tacccctagc
      361 caggggcttt caggtcgcca ggaaccgcgc cagccccctg caaagcccat ttgcacggta
      421 caggcagtca ctcggttggt aggtggtcgt agaccgtcgg tgttacagcg atgggggtct
      481 ggggttctcc ccagacggtt tccggttgcg ctcaaggcgc tgccggaacc gtggcggctc
      541 ggtcgttctg gagatcgggg agcaaaaaca cgcaagggat tttgaggcgg caaaagagca
      601 atgcaggata gacaatcatg gtcagaacgt taacacgtag cccctgattg tccgcctgcc
      661 gctggctcaa tttgaaaaca tggccatgat tcggcgctga atatcaccgt ctttgttgac
      721 cagtgtttta gtgacaaatg ctgcatggtt tttcgtagtg ttgtatccct tccagacttc
      781 atgtggatcg agggcatacg cacaaacctt accagcaacg gggattctaa ctaatgcatt
      841 ttttgattct aagtaattga gccaacgaat aattgtgctt ctgctaactc caagtttttc
      901 agctaggaat tgctgatccg caacgacagc gccacacgta ggatcgatat gctccgctaa
      961 aaatgagtac agcttcagtg ctgatatgcc ttggctatcc ttcagcagct ctcgaacgcg
     1021 ttcccaacct tttggggata cctgtgtaaa ccttgaattc ttctttgctt cttcgagatc
     1081 ctcggtgttt ttctttgcct catctgaaag ttgtttcagt cgtttttctg aatcaataaa
     1141 catgattttt tccctctaaa aatcccatgc actaacgttg gttcaaatct aagccatcat
     1201 gacacatctg tgcaacacct tgttgcgtgt tgtcgcatcc tggatgcgac aacgttgtgt
     1261 caccctggat gcgacaggta aacaaaaaac acactaaaaa aacaacaact tacaaatcgg
     1321 cgtaaaagat ctattctagg caagggtgtt gcgcgcaacg caacgccctt tgggggtgtc
     1381 ggggcgaagc cctgacccag tcacgtagcg atagcggagt gtatactggc ttactcctct
     1441 gcaagcctcg ccagccgtga tttttgccag atttcgtggt tttcacgttc aacagctcct
     1501 gcacgttttt tgccgtccgt tcaccgttaa cccccacaga aatcgggaca gg
//
