LOCUS       NZ_CP080125             2871 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Escherichia coli strain PK8217 plasmid pPK8217-2kb, complete
            sequence.
ACCESSION   NZ_CP080125
VERSION     NZ_CP080125.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20348707
            Assembly: GCF_019428625.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2871)
  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 2871)
  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 08:15:54
            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)                     :: 4,984
            CDSs (total)                      :: 4,866
            Genes (coding)                    :: 4,579
            CDSs (with protein)               :: 4,579
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 287
            CDSs (without protein)            :: 287
            Pseudo Genes (ambiguous residues) :: 0 of 287
            Pseudo Genes (frameshifted)       :: 63 of 287
            Pseudo Genes (incomplete)         :: 214 of 287
            Pseudo Genes (internal stop)      :: 45 of 287
            Pseudo Genes (multiple problems)  :: 34 of 287
            Pseudo Genes (short protein)      :: 3 of 287
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080125.1.
            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..2871
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK8217"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pPK8217-2kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.34 N 72.95 E"
                     /collection_date="2021-03-11"
                     /collected_by="Mashkoor Mohsin"
     gene            1626..2138
                     /locus_tag="KZO72_RS24635"
                     /old_locus_tag="KZO72_24640"
     CDS             1626..2138
                     /locus_tag="KZO72_RS24635"
                     /old_locus_tag="KZO72_24640"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000170168.1"
                     /translation="MTKVTVDYPSSISRRKLSNLFNHSPFMLSLIHDMCDSQAIVFAAM
                     CEGKCVTSAGNRIEADYEVTKLAAVIDVLENKFYLPVSRVKIPTASDTGGGTIQAKYLI
                     TENDMQLLLEDPESVVLMRERLALSKLKSRDERCLKRLVSVHGYDEVFRTLQALDVAND
                     SFGRDCG"
                     /name="hypothetical protein"
     Typing          complement(2354..2714)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.751"
                     /coverage="84.0"
                     /evalue="3.81e-158"
ORIGIN
        1 agctgcattt cttaatacga tgcaggatag ggcgaacgcc gcaaaatgac gtcacctaac
       61 gttctaaagt agcggacagg aaatgttttg tgtccaccgc catactggct tattcacaaa
      121 acagcgggaa aagatgtgtc tttggagtac cgcccgaact ccaaaacgct atgatcaggc
      181 tccgcccgat acctttagcg acgagtgttt gcagtctgtc tttaatctgt tggccatgtg
      241 ccccgcatct gtttgctgag tgtttgcaat gtgtccctga tctgtttact acgtgtttac
      301 gatgtgtccc tgatctgttt actacgggtt tatagcctgt ttttcccctg atttactgct
      361 catgaccaag gcacgttagc gatgtataca ccgccgcgcc gcaagggtgc cccttccgaa
      421 tcccgttaca tcgctgtgcg ctgatcactc caggttacat ccgacccctt ggcaataaat
      481 cctgccatgc ctgacggcct ggccaacgcc tcacggccgc acagtaaact gcgcaaccgt
      541 gaggcgttat cggtggggtt tgtggtggct ttcaggacgt tcgctggatt ttagccgcta
      601 aaatggcggc cattcgtttg tttgcatagc catgcacacg cgcagaaatt aactgggggt
      661 taaaagcggt ttttaacggg gtttaacccc ggttttcagg caggagaccg cagaaacgca
      721 ctgagggtgt ctgagatggt gcggccaaca gatgttatgg taaatgtcac acgttttgat
      781 gatgacttat ggttcctgca ttttgggtac aaagttactt ttccgcattg catcttcgtt
      841 tcttttgatg tggcgaatca catgatgggc cgatagatgg tgcagtccaa agatcctcac
      901 cgatccttcc acttcaattt aactaattgt taattaatcg ctattttcaa atctataaat
      961 tacaccgatc gatataggta ctttcaatag ataaaaacac taaagaattt atatgtgctt
     1021 taaacggctt taaacggctt taaacggctt taaattatta gtgaggtaat gcgatggcta
     1081 atctgttgat cgcgtcttag atggcgtttg gtgccgcgta atgaaggttt tatagatagc
     1141 tctcgatgtt gctgttggtc tgatggctgg ttttttaaac actgtttacg ggatctctcg
     1201 ttagaattac tatccttggc gctggctgtg gtggctggcg atgaaaaata taggcaggta
     1261 gctgtggtgg ctatttgtcg aagcttgaga tggcttctaa agaaggtgaa accttcacaa
     1321 tagaacccgc taatcgtgaa gaggcgggtt tttttgtgtc aaaaattctc tattcatcag
     1381 cccactaatt gctcttcaat atgatgatcg tgttagaata ggcgcaacgg cagacctaac
     1441 cagtttgcga gcctaaccag ctcatgcacc gttagcaaat aaccttaatt ttcttcacgg
     1501 accgcaaggt caaggtgcca aaatgtgtaa tgaaatctcg atccctcatc agggggatgt
     1561 cagctatacc tccttcacgt tccgcaaggt tctgtccgct atttttcgtg gcgtgggggt
     1621 gagtcatgac taaagtaact gtcgattatc cttcttccat ctcccgccgt aagctttcaa
     1681 atctgttcaa tcactctccg tttatgctgt ctcttatcca tgacatgtgt gactctcaag
     1741 ctattgtttt tgcggccatg tgtgaaggta agtgcgttac aagcgcgggg aatcggattg
     1801 aagcagacta cgaagtaact aagctagcgg ctgtcattga tgttctggaa aataagtttt
     1861 acctgcctgt atcgcgcgtg aaaattccta ccgcgtcgga tactggcggt ggaaccatcc
     1921 aagctaagta tcttattacg gaaaatgata tgcagctgtt gttggaagac ccggaatcag
     1981 tggttttgat gagggaacga ttggctcttt ctaaactaaa gagtcgagat gaacgttgct
     2041 tgaaacgttt ggtgtccgtt catggttatg atgaagtttt tcgaacgctc caggcattag
     2101 atgtagctaa tgattctttt ggtcgagatt gcgggtaata ccttaagcgg taataaattg
     2161 acgtttaagg catggccgtt taacgtctaa cgctagaaag aaaaaaagcc acccggcaag
     2221 gtggcttttt caaggttcaa taaacgggca agtttttgaa cctggtaact gtcgtaaggg
     2281 cgacgagtca ccaaaacaag tatctccagt ttagccgcaa tatggctatc acatcaagac
     2341 tcatcccttt gcccagttac cattggccgc tgccattggc gctttgtcgt gtctatccgg
     2401 attggattca agtcgaaagt taccggaata ggcgctgcgg tcggactgaa cggggggttc
     2461 gtgcatacag tccagcttgg agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat
     2521 gagacaaacg cggccataac agcggaatga caccggtaaa ccgcatggca ggaacaggag
     2581 agcgcacgag ggagctacca gggggaaacg cctgggatct ttatagtcct gtcgggtttc
     2641 gccaccactg atttgagcgt cagattctgt gatgcttgtc aggggggcgg agcctatgga
     2701 aaaccggcag cgcctctacc ttcctcggtt ggctcactgt cctacttcat agctttctct
     2761 ccctaggtgt ctgctccctc cgctcgccgc agtcgaacga ccgagcgtag cgagtcagtg
     2821 agcgaggaag cggaatatcg ctaggcttat cttcggcacc gtacacgcta t
//
