LOCUS       NZ_CP080171             2096 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Escherichia coli strain PK8275 plasmid pPK8275-2kb, complete
            sequence.
ACCESSION   NZ_CP080171
VERSION     NZ_CP080171.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20353479
            Assembly: GCF_019428765.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2096)
  AUTHORS   Li,R., Lu,X., Munir,A., Abdullah,S., Liu,Y., Xiao,X., Wang,Z. and
            Mohsin,M.
  TITLE     Widespread prevalence and molecular epidemiology of tet(X4) and
            mcr-1 harboring Escherichia coli isolated from chickens in Pakistan
  JOURNAL   Sci Total Environ 806 (Pt 2), 150689 (2022)
   PUBMED   34599956
REFERENCE   2  (bases 1 to 2096)
  AUTHORS   Mohsin,M., Li,R. and Lu,X.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-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 Date                   :: 02/17/2024 08:27:08
            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)                     :: 5,648
            CDSs (total)                      :: 5,529
            Genes (coding)                    :: 5,219
            CDSs (with protein)               :: 5,219
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 310
            CDSs (without protein)            :: 310
            Pseudo Genes (ambiguous residues) :: 0 of 310
            Pseudo Genes (frameshifted)       :: 126 of 310
            Pseudo Genes (incomplete)         :: 212 of 310
            Pseudo Genes (internal stop)      :: 61 of 310
            Pseudo Genes (multiple problems)  :: 78 of 310
            Pseudo Genes (short protein)      :: 5 of 310
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080171.1.
            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..2096
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK8275"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pPK8275-2kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.50 N 73.02 E"
                     /collection_date="2020-05-11"
                     /collected_by="Mashkoor Mohsin"
     gene            709..1698
                     /locus_tag="KZY08_RS27980"
                     /old_locus_tag="KZY08_28000"
     CDS             709..1698
                     /locus_tag="KZY08_RS27980"
                     /old_locus_tag="KZY08_28000"
                     /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_219795314.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVVDPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          1701..1782
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(1425..1616)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 taaaacacag gcacgataag cggcgtacac aaaacggggc gtttcgctcc gtcgcttgtg
       61 ccaaagggga cacccctttg caaccctgtg cggttctacg aacctggtca ggactgcgcc
      121 ccgacacccc gccaacgcct cacggaacgc gaaaaaattc cgcgtaccgt tcaccgttcc
      181 ctgattcgtc aaacagaaaa tcgcgggggc ccgcgcctcc ggcgtgggtt ccgattttgt
      241 gattgacgac ggcacgggaa aaacactggg gatggtggtt ggtgtcacgc agtgaggcca
      301 accacctgca agacggtttt ttttgttgtt cacaaaatcg gggtgaaagt ctgtggatga
      361 gatgggtgta agtgggtggg gttgggtgtt ttgggttact gaaaatcccg ctcaaaattc
      421 aagcgaatct cgcgcgcgat ccttgtattt atacttaagg gataactcta ggattcaaat
      481 tcgcctccag cccttgtgcc gcaaggcctg aagggggatt tgtcggaaaa tggttttgga
      541 gttattctgt cgggagtggt cgcattaaaa gcgacccccg caacgagggc aatcgttcgg
      601 gggtgtgacc acctgtagga attcgaattg gtgatacgac taacacaaca ggtgatatgg
      661 caatgataac acgtcagatg agccatcgcc cactatcggg tggtgcgcat gaaaaaccct
      721 gatctccaga acctcacgga ctattccccc tcagatgcgc cctgggacgc tcacagaagc
      781 gtttctgatg acgtgggagg gatttacctg cttgcagccg aatatgagcg ctacggggcg
      841 cgtatggccc tctgtggtgg tttactgcgt ttcgggtggt ctaccctcaa ggaaaccgga
      901 gaaacgcgtc tgaggctgcg tgaggcgcat ttctgccgtg tccggcattg tcctgtctgc
      961 cagtggaggc gctccctgat gtggcaagcc cgtttctacc agtccctgcc gcgtatcgtg
     1021 gcggattatc ccgatgcccg ctggatgttc ctgactctga ccgtgcgcaa ctgtgcgatc
     1081 ggggagctgg gcgagatgct gaaccggatg aatgcagctt ttcagcgcat gaaggttcgc
     1141 aaggagttcc ggcctgtgca gggctggata cgtaccacgg aagtcacccg cgggagcgac
     1201 ggcagcgcac acccgcactt ccacaccctg atgatggtgc cgcctggcat gctaaatggg
     1261 aaaagttacg tcaggcatga acgctgggtt gaactctggc gggagtgtct gcgggtcgat
     1321 tatgacccga atgttgatgt ccgggcagtg aaacctcgta agccgaaggg cggcgaatcg
     1381 ctggcctgcg cgaccgccga actggtgcgc ggtgcggtgg ccgaaaccct gaaatattcc
     1441 acgaagccgg ctgacatggt ggtcgatcct gaatggttcc tcgaactgac ccgccagacg
     1501 cacaagcgcc gctttgtggc gaccggcggc gcactcaaag acgtgctgaa actcgatcag
     1561 gaaactgacg ccgacatggt gatcggtgat gatatttccg agggcgacga tgacggttca
     1621 cgaatcgcgt tcgagtggaa aaccgaggtc agaaagtacc gtcgctcacc gacgaaagat
     1681 aaaactgaat caggctagcg gggtgtcggg gtgcacccct gaccagatgg caattgtgat
     1741 agcgtcgcgt gtgacggtat tacaattaca catcctgtcc cgaaaattcc cgccgtttct
     1801 cggttttttg agcgtcgcag accgcacgac aaacgaacct aaggtgagtt tgtataagtg
     1861 cgcacttcgt gagattccct gactgccagt ttgtcgattg cgcggaacgg ctgcggcacg
     1921 aaaacggcaa aatgatttac tcgccgtttg tgtgggttgt tttgtggggt gtcaatgggg
     1981 ttgtggtctt ttttgtgggt taaagtgtgg gtgattgtgt gggctgtgtg ttttgagttg
     2041 tgggtgatta tgtgggtcat tgtgtgggct gtatgcacgg catttttttg ttctcc
//
