LOCUS       NZ_CP080161             2313 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Escherichia coli strain PK8261 plasmid pPK8261-2.3kb, complete
            sequence.
ACCESSION   NZ_CP080161
VERSION     NZ_CP080161.1
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 2313)
  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 2313)
  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
            CP080161.1.
            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..2313
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK8261"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pPK8261-2.3kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.50 N 73.02 E"
                     /collection_date="2020-05-11"
                     /collected_by="Mashkoor Mohsin"
     gene            1022..1519
                     /locus_tag="KZY07_RS27510"
                     /old_locus_tag="KZY07_27515"
     CDS             1022..1519
                     /locus_tag="KZY07_RS27510"
                     /old_locus_tag="KZY07_27515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001027759.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_023156898.1"
                     /translation="MNITERTDSKKKVLRQNITEVIDRETGNVTQEITDITVQFPQEPA
                     YVKIYIDNLCAVTKAPDSLKDVLFLILRKLDYDGYIALSTRYRKEICKLLGIKDGTLRN
                     RLYSLSKMGIIASCGGNEYQANPNLFARGEWKKIIEQRREFEMRIKYSPNGETIITTEE
                     IK"
                     /name="replication/maintenance protein RepL"
     gene            complement(1553..1978)
                     /gene="mobA"
                     /locus_tag="KZY07_RS27515"
                     /old_locus_tag="KZY07_27520"
     CDS             complement(1553..1978)
                     /gene="mobA"
                     /locus_tag="KZY07_RS27515"
                     /old_locus_tag="KZY07_27520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_024257935.1"
                     /translation="MAKNKRSGSEVRQRTKVITLRVNNRLASEIRRRAKNEGLTISEYI
                     RTASLNNEIKQRVPSRYLYELIRLGRMQKKLFDKGKRPKDKEYLEVMHKIILLCDEMKI
                     VTKRISDIYNEMDLIKDEIKIIKRLHKNKYPGSDLFK"
                     /name="mobA"
     Typing          complement(413..671)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.842"
                     /coverage="100.0"
                     /evalue="1.48e-75"
ORIGIN
        1 ttggtaatgc gggattcgtc cagagagcag gaggcaaaag agcaagatgg tagcatatgc
       61 ataaaatata actatgtgag ttattgatat cgcgtttata tattaaaaat ataacttaac
      121 gtcgctccta atctttattt catcctggca atgggagcat taatccccgt gcagtgctcc
      181 gccagctgct gacaacctcg acatataacc atcgatacga tagaacatca gggcgcgttt
      241 ccggcaagaa ctaaccatgg ggatggtttg cgtgccaacg aacgccggaa acgcgcttca
      301 aacctaccga gtcgccacgg ttccggcagc gccttgagcg caaccggaaa ccgtctgggg
      361 agaaccccag acccccaccg ctgcaacatc gacggtctat gaccacccac caaccgagta
      421 gctgcccatc ccgtgcaaat gggctttgca gggggctggc gcggttcctg gcgacctgaa
      481 agcccctggt taggggtatc ggcgcgcctg gcctcctgaa accctctgta agcgtttttc
      541 gcgccttcca tgccctgacg ggcatttaga ccccgtttcg tgcgtctggg aggctctgag
      601 cgcgtttaac agatgaccag cgactcgatc gcctgagatc aaatcgggat catcaacgat
      661 atgcgagagg tggcaccgct cgccgcagcc ccagcgaccg agccgccagg ctcgcgagtg
      721 ggcgaggaag cggaagagaa ccggaagcta cattgagcac gcacgctcaa tattaaaatt
      781 gtcacttcgt aaatagagat tatgcctcgt gcttgtggat acatttaaaa atataagata
      841 tccgaattag gctacatacg ggctgatcgc caatgttgta acgtgtagaa gatacacctg
      901 taacgtgtac aggatacacc tgtaacgtgt gggcggtatt cgcgtaatct atattgagtg
      961 acattttgtt ttttgggtat tatattgttt gtcaccttta taaagtgaca aaggcgataa
     1021 aatgaacatt actgaaagaa cggatagcaa gaaaaaagtt ttaagacaaa atattactga
     1081 ggttatagat agagaaactg gaaacgtaac acaagaaata accgatataa cagttcaatt
     1141 tccacaagaa cctgcgtatg tgaaaattta tattgataat ttatgtgctg tcacaaaagc
     1201 acctgattct ctaaaagatg ttttattttt aattcttagg aaattggatt atgacggata
     1261 tattgcatta tcaactagat accgtaagga gatctgtaaa ttattgggaa taaaagacgg
     1321 aacattacgt aacagattgt attcattatc aaaaatgggg attattgcta gttgtggcgg
     1381 taatgaatat caggcgaacc ctaatttatt tgctcgtggt gaatggaaaa aaataattga
     1441 acagcgtcgc gagtttgaaa tgagaattaa atattcacct aacggtgaaa ctattataac
     1501 aaccgaagaa ataaaataat gcgcacctaa ataaggtctt tttaaaaaga ccttatttga
     1561 ataaatccga acctggatat ttatttttat gtagcctttt tattattttt atttcatcct
     1621 ttattaaatc catttcatta tatatatcag aaattcgctt cgttactatt ttcatttcat
     1681 cgcaaagtaa aattatttta tgcatcacct cgaggtactc tttatccttc ggccgctttc
     1741 ccttatcaaa taattttttc tgcatccgac caagtcggat taattcatat aaatacctgg
     1801 aaggtacgcg ctgttttatt tcattattta aacttgccgt cctgatatat tctgaaattg
     1861 tcagtccttc gttcttcgct cgccgtctga tttcgcttgc aagtctgtta tttactctaa
     1921 gggtgataac cttagttctc tgccgtactt ctgaaccact acgtttattt ttagccatcg
     1981 caatgactct ccattttgca cgtttggggt gtcggggctt gccctgacag gaggtattct
     2041 catgcaagcg aatgtattcg cggtatgacg aatacacatc ctgtcccatt ttccgctgca
     2101 acttttcaac gaaaataaaa taccgcgtcg taacctggta tttctgatac aaaaaaatga
     2161 tgcttcattc aatattattt acacagattt taaaaattat tgattgttat ttaataaata
     2221 acaccgaatt aattgatgtc tttgttgtct gtcgtttgtt gattattaga ggaataaaga
     2281 ttagatcttc ttggttatat aatccattgc ctg
//
