LOCUS       NZ_CP080374             2088 bp    DNA     circular CON 22-MAY-2024
DEFINITION  Escherichia coli strain PK5086 plasmid pPK5086-2kb, complete
            sequence.
ACCESSION   NZ_CP080374
VERSION     NZ_CP080374.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20445367
            Assembly: GCF_019443365.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2088)
  AUTHORS   Li,R., Mohsin,M., Lu,X., Abdullah,S., Munir,A. and Wang,Z.
  TITLE     Emergence of Plasmid-Mediated Resistance Genes tet(X) and mcr-1 in
            Escherichia coli Clinical Isolates from Pakistan
  JOURNAL   mSphere 6 (4), e0069521 (2021)
   PUBMED   34431695
REFERENCE   2  (bases 1 to 2088)
  AUTHORS   Mohsin,M., Li,R. and Lu,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JUL-2021) Colloege of Veterinary Medicine, Yangzhou
            University, Shuangqiao Street, YangZhou, JiangSu 225000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JAN-2021
            Assembly Method                   :: Unicycler v. 0.4.4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019443365.1-RS_2024_05_22
            Annotation Date                   :: 05/22/2024 03:16:36
            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)                     :: 4,925
            CDSs (total)                      :: 4,805
            Genes (coding)                    :: 4,554
            CDSs (with protein)               :: 4,554
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 82 of 251
            Pseudo Genes (incomplete)         :: 159 of 251
            Pseudo Genes (internal stop)      :: 52 of 251
            Pseudo Genes (multiple problems)  :: 35 of 251
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080374.1.
            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..2088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK5086"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pPK5086-2kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.45 N 73.08 E"
                     /collection_date="2019-12-23"
                     /collected_by="Mashkoor Mohsin"
     gene            join(1520..2088,1..397)
                     /locus_tag="K0H55_RS24425"
                     /old_locus_tag="K0H55_24425"
     CDS             join(1520..2088,1..397)
                     /locus_tag="K0H55_RS24425"
                     /old_locus_tag="K0H55_24425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_039064478.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLAIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            401..667
                     /locus_tag="K0H55_RS24430"
                     /old_locus_tag="K0H55_24430"
     CDS             401..667
                     /locus_tag="K0H55_RS24430"
                     /old_locus_tag="K0H55_24430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          1914..2088
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="9.94e-87"
ORIGIN
        1 ttgggtagaa ctctggcgcg attgcttgcg ggtgaactat gagccgaata tcgatattcg
       61 ggcagtaaaa actaagacag gtgaggttgt ggccaacgtt gccgagcaac tgcaaagcgc
      121 ggttgctgaa acgctgaaat actccgttaa accggaagat atggcaaacg atcctgagtg
      181 gtttcttgag ctgacgcggc agcttcacaa gcgccgtttt atctcgaccg gtggagcgct
      241 aaaaaacgtc ctccagttgg atcgagaaac caatgaggat cttgccattg ccgacgatgt
      301 aggggatggc actgatgacg ggaagcggac ggcgtttgtc tgggattcag gtaaacggcg
      361 ttacaaacgc gcccctgaga aggataaatc ggattaacgt atgaatatta atattgaata
      421 cctgaatgga aataagacta ttggtttatt ttttttaaga agtgaagcgg tgattcctga
      481 caggtttaaa aaccttattt tgcttattga tggattaagt tttggcacat ttggttttca
      541 tccgcacgaa ggttttgagg atgaattaat tttatatatt cagaaaacaa acgagagggt
      601 aaaaactctt tttgtgaaaa tagatttaaa cggtatcaag tttggatttt taagaacgca
      661 ttcttagttc tggaaaagag ccagcggcag gctgaggtga taggtacgag attgcatgca
      721 atctctagtg ctctgtctat cctgcattat cctcagcatt atcctcagcc ttgccaactc
      781 gacaccaatg caggatagac aatccgatgt caaatgttaa cactctgcga gtggtacatt
      841 ttccccggat tatcgtcctg agcctgccgc tggctctctt tctaccgcct cgctttgctc
      901 gttgctcaac gcctcacaga cacggattaa aatccgcatc cgttcaccgt tttttaaagt
      961 ccgttaaaag catgatgcca tctccgagag ttaatctcgt caaatgctaa atcgtggggg
     1021 tcccctttgg ggttccgatt tagtgattga cgacaccacc gattaaaaaa cttatgcggg
     1081 gtggatggtt tcacgaagtg aggccatcca cctgtaagac agggttttgt ttttatcccc
     1141 tgttttggtg atcgggtgtg tggaaaaggt tggggtaagc cgttcggggt gcttgttttg
     1201 gggggttaaa attgtggtta ttttttgcgc aattctcgcg cgtgatcctt gtatttatac
     1261 ttaagggata aatggcgggt atgaaatagt ggtttagccc agtaatgacg aggctttgag
     1321 tgggttttga caggtcaaag aaaatggagc agaattgagg cgtttttaat cggcgttggg
     1381 gagtgcgtca acactcccca acatttcgaa tgtgtcacct cagcggcaaa ctctggtgac
     1441 atgtactggc tcgcaatgca caggtacgtg atgaatatac cacatcaaat cacagcctgc
     1501 ccagatcgga gcaggcttaa tgtcagaaga taaattcctt tcggactaca gcccccgtga
     1561 tgcagtttgg gatacccagc gcacgcttac cgattctgtc gggggtatct accagactgc
     1621 tgctgaattc gagcgctatg cactccgtat ggcctcctgt agcggtttgt tacgttttgg
     1681 ttggtctacc atcatggaaa ccggagaaac gcgcctacgg cttcgtagtg cgcaattttg
     1741 ccgtgtccgt cattgccctg tctgccagtg gagaagaacc ctcatgtggc aagcccgttt
     1801 ttatcaggct ctaccgaaaa tcgttgtgga ttacccgtct tcccgatggt tgtttctgac
     1861 gttaactgtc aggaactgcg agataggtga acttggaaca gtccttacag caatgaatgc
     1921 ggcgtttaag cgaatggaaa agcgaaagga gctatcacct gttcaggggt ggatcagggc
     1981 tacggaggtg acgcgaggta aggatggcag cgcacatccg cattttcact gtctgctgat
     2041 ggtgcaacct tcttggttta aagggaagaa ctacgttaag cacgaacg
//
