LOCUS       NZ_CP080162             2096 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Escherichia coli strain PK8261 plasmid pPK8261-2kb, complete
            sequence.
ACCESSION   NZ_CP080162
VERSION     NZ_CP080162.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20353475
            Assembly: GCF_019428745.1
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 08:12:46
            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)                     :: 5,557
            CDSs (total)                      :: 5,437
            Genes (coding)                    :: 5,135
            CDSs (with protein)               :: 5,135
            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)              :: 302
            CDSs (without protein)            :: 302
            Pseudo Genes (ambiguous residues) :: 0 of 302
            Pseudo Genes (frameshifted)       :: 124 of 302
            Pseudo Genes (incomplete)         :: 205 of 302
            Pseudo Genes (internal stop)      :: 62 of 302
            Pseudo Genes (multiple problems)  :: 78 of 302
            Pseudo Genes (short protein)      :: 5 of 302
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080162.1.
            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="PK8261"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pPK8261-2kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.50 N 73.02 E"
                     /collection_date="2020-05-11"
                     /collected_by="Mashkoor Mohsin"
     gene            1007..1996
                     /locus_tag="KZY07_RS27520"
                     /old_locus_tag="KZY07_27525"
     CDS             1007..1996
                     /locus_tag="KZY07_RS27520"
                     /old_locus_tag="KZY07_27525"
                     /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          1999..2080
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(1723..1914)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 ctcggttttt tgagcgtcgc agaccgcacg acaaacgaac ctaaggtgag tttgtataag
       61 tgcgcacttc gtgagattcc ctgactgcca gtttgtcgat tgcgcggaac ggctgcggca
      121 cgaaaacggc aaaatgattt actcgccgtt tgtgtgggtt gttttgtggg gtgtcaatgg
      181 ggttgtggtc ttttttgtgg gttaaagtgt gggtgattgt gtgggctgtg tgttttgagt
      241 tgtgggtgat tatgtgggtc attgtgtggg ctgtatgcac ggcatttttt tgttctccta
      301 aaacacaggc acgataagcg gcgtacacaa aacggggcgt ttcgctccgt cgcttgtgcc
      361 aaaggggaca cccctttgca accctgtgcg gttctacgaa cctggtcagg actgcgcccc
      421 gacaccccgc caacgcctca cggaacgcga aaaaattccg cgtaccgttc accgttccct
      481 gattcgtcaa acagaaaatc gcgggggccc gcgcctccgg cgtgggttcc gattttgtga
      541 ttgacgacgg cacgggaaaa acactgggga tggtggttgg tgtcacgcag tgaggccaac
      601 cacctgcaag acggtttttt ttgttgttca caaaatcggg gtgaaagtct gtggatgaga
      661 tgggtgtaag tgggtggggt tgggtgtttt gggttactga aaatcccgct caaaattcaa
      721 gcgaatctcg cgcgcgatcc ttgtatttat acttaaggga taactctagg attcaaattc
      781 gcctccagcc cttgtgccgc aaggcctgaa gggggatttg tcggaaaatg gttttggagt
      841 tattctgtcg ggagtggtcg cattaaaagc gacccccgca acgagggcaa tcgttcgggg
      901 gtgtgaccac ctgtaggaat tcgaattggt gatacgacta acacaacagg tgatatggca
      961 atgataacac gtcagatgag ccatcgccca ctatcgggtg gtgcgcatga aaaaccctga
     1021 tctccagaac ctcacggact attccccctc agatgcgccc tgggacgctc acagaagcgt
     1081 ttctgatgac gtgggaggga tttacctgct tgcagccgaa tatgagcgct acggggcgcg
     1141 tatggccctc tgtggtggtt tactgcgttt cgggtggtct accctcaagg aaaccggaga
     1201 aacgcgtctg aggctgcgtg aggcgcattt ctgccgtgtc cggcattgtc ctgtctgcca
     1261 gtggaggcgc tccctgatgt ggcaagcccg tttctaccag tccctgccgc gtatcgtggc
     1321 ggattatccc gatgcccgct ggatgttcct gactctgacc gtgcgcaact gtgcgatcgg
     1381 ggagctgggc gagatgctga accggatgaa tgcagctttt cagcgcatga aggttcgcaa
     1441 ggagttccgg cctgtgcagg gctggatacg taccacggaa gtcacccgcg ggagcgacgg
     1501 cagcgcacac ccgcacttcc acaccctgat gatggtgccg cctggcatgc taaatgggaa
     1561 aagttacgtc aggcatgaac gctgggttga actctggcgg gagtgtctgc gggtcgatta
     1621 tgacccgaat gttgatgtcc gggcagtgaa acctcgtaag ccgaagggcg gcgaatcgct
     1681 ggcctgcgcg accgccgaac tggtgcgcgg tgcggtggcc gaaaccctga aatattccac
     1741 gaagccggct gacatggtgg tcgatcctga atggttcctc gaactgaccc gccagacgca
     1801 caagcgccgc tttgtggcga ccggcggcgc actcaaagac gtgctgaaac tcgatcagga
     1861 aactgacgcc gacatggtga tcggtgatga tatttccgag ggcgacgatg acggttcacg
     1921 aatcgcgttc gagtggaaaa ccgaggtcag aaagtaccgt cgctcaccga cgaaagataa
     1981 aactgaatca ggctagcggg gtgtcggggt gcacccctga ccagatggca attgtgatag
     2041 cgtcgcgtgt gacggtatta caattacaca tcctgtcccg aaaattcccg ccgttt
//
