LOCUS       NZ_CP130672             1597 bp    DNA     circular CON 01-AUG-2023
DEFINITION  Escherichia coli strain SM107 plasmid pSM107_3, complete sequence.
ACCESSION   NZ_CP130672
VERSION     NZ_CP130672.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN36664847
            Assembly: GCF_030552915.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1597)
  AUTHORS   Bao,D.
  TITLE     Genomic characteristics of a carbapenem resistant Escherichia coli
            isolate
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1597)
  AUTHORS   Bao,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-JUL-2023) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/30/2023 16:45:42
            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)                     :: 5,424
            CDSs (total)                      :: 5,301
            Genes (coding)                    :: 5,066
            CDSs (with protein)               :: 5,066
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 235
            CDSs (without protein)            :: 235
            Pseudo Genes (ambiguous residues) :: 0 of 235
            Pseudo Genes (frameshifted)       :: 85 of 235
            Pseudo Genes (incomplete)         :: 168 of 235
            Pseudo Genes (internal stop)      :: 56 of 235
            Pseudo Genes (multiple problems)  :: 59 of 235
            Pseudo Genes (short protein)      :: 2 of 235
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP130672.1.
            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..1597
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="SM107"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSM107_3"
                     /geo_loc_name="China: Sanmen"
                     /collection_date="2022-10-26"
                     /collected_by="Danni Bao"
     gene            1..441
                     /locus_tag="Q4S51_RS27115"
                     /old_locus_tag="Q4S51_27115"
     CDS             1..441
                     /locus_tag="Q4S51_RS27115"
                     /old_locus_tag="Q4S51_27115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000031238.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000031238.1"
                     /translation="MSKDVERITQINDQGEIIGGFVAVIRPKQKSAFQRHFTMNQDALR
                     ILAKELTGEQFKVLMLMLADLDYENFIQIAQADIAETLGMQKTNVSRAVRALLDVGVIF
                     EGPKVGRSKTYRLNEQFGWKGTVTNHKKALKNGFSVIQGGRI"
                     /name="hypothetical protein"
     gene            complement(615..1154)
                     /locus_tag="Q4S51_RS27120"
                     /old_locus_tag="Q4S51_27120"
     CDS             complement(615..1154)
                     /locus_tag="Q4S51_RS27120"
                     /old_locus_tag="Q4S51_27120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000264305.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="rep protein"
                     /protein_id="WP_229997960.1"
                     /translation="MWFPVLFRFLAHSLTTFGRWGCGERCHLSHIACDSVVVLSGMSRQ
                     IALQTRSEALRRTKRVLNARQGMEGAKNAYRGSQEVRRADTPNQGLSGRQEPRQPPAKP
                     NCTEQAVTQLVGGRRPLILQQWGSGVLPRRFPVALKALPKPWQTMAKIRLSAFLALAAN
                     TNHPMVGLCQKRAEVF"
                     /name="rep protein"
     Typing          complement(825..1075)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.254"
                     /coverage="96.0"
                     /evalue="1.43e-100"
ORIGIN
        1 atgagtaagg atgtcgagag aatcactcag ataaatgacc agggtgagat tatcggcggc
       61 ttcgttgccg ttatccgccc taaacaaaaa tcagcatttc agaggcattt caccatgaat
      121 caagacgcat tacggatctt ggctaaggaa ttaaccgggg agcaattcaa ggtcttaatg
      181 ctgatgcttg cagatctgga ttacgaaaac ttcattcaga tcgcccaagc agatattgct
      241 gaaactttag ggatgcagaa aacgaatgtt agtcgcgccg ttcgcgcgct actggatgtt
      301 ggggtgatct ttgagggacc taaagttggc agatcaaaaa cataccggct gaatgaacaa
      361 tttggttgga aaggcaccgt aaccaaccac aaaaaggcac tcaaaaacgg ctttagtgtc
      421 attcagggcg gccgaattta aagagccagc ggcaggcgga caatcagggg ctacgtgtta
      481 acgttttgac catgattgtc tatcctgcat tgctcttttg ccgcctcaaa atcccttgca
      541 ttttttgcac ccccgttctc cagaactacg caattcgaac aggtcctgtg actagacgtt
      601 gatcgggcaa tacgctaaaa cacttccgcg cgtttctggc ataaaccaac catgggatgg
      661 tttgtgttag cagcaagcgc cagaaacgcg ctcaatctaa tcttcgccat cgtttgccac
      721 ggtttcggca gcgccttgag cgcaaccgga aaccgtctgg ggagaacccc agacccccat
      781 tgctgtaata tcaacggtct acgaccacct accagctgag tgactgcctg ttccgtgcag
      841 ttgggctttg cagggggctg gcgcggttcc tggcgacctg aaagcccctg gttaggggta
      901 tcggcgcgcc tgacctcctg agagcctctg taagcgtttt tcgcgccttc catgccctga
      961 cgggcattta aaacccgttt cgtgcgtctg agagcttctg agcgcgtttg aagggctatc
     1021 tgacgactca tccccgaaag aacaacaacg gaatcacagg caatatgcga gaggtgacac
     1081 cgctcgccgc agccccagcg accgaacgta gtgagcgagt gggcgaggaa gcggaagaga
     1141 accggaaacc acattgagca cgtacgcact gatgcggggt gtcggggtga agccctgacc
     1201 agatggcaaa cggaatatcg tcgcgggtga cggtattaca tttgcacatc ctgtcccgat
     1261 ttctgcggag tttaacggtg aacggacggc aaaaaacgtg caggagctgt tgaacgtgaa
     1321 aaccacgaaa tctggcaaaa atcacagctg acgaggcttg cagaggagta agccagtata
     1381 cactccgcta tcgctacgtg actgggtcat ggctgcgccc cgacacccca aagagcagct
     1441 aggataaata tctaatggaa tcaatgcgtt agatgcctaa tataaagata cagaaaggag
     1501 aataaaaaca ttaataaaat ctaagggtta cagttgacat agttatcaat aatgataaca
     1561 ctgttatcat tattgataac tcaaataggg ttcaaag
//
