LOCUS       NZ_CP080145             2337 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Escherichia coli strain PK8241 plasmid pPK8241-2kb, complete
            sequence.
ACCESSION   NZ_CP080145
VERSION     NZ_CP080145.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20353352
            Assembly: GCF_019428705.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2337)
  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 2337)
  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 07:59:14
            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)                     :: 5,930
            CDSs (total)                      :: 5,804
            Genes (coding)                    :: 5,446
            CDSs (with protein)               :: 5,446
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 358
            CDSs (without protein)            :: 358
            Pseudo Genes (ambiguous residues) :: 0 of 358
            Pseudo Genes (frameshifted)       :: 124 of 358
            Pseudo Genes (incomplete)         :: 234 of 358
            Pseudo Genes (internal stop)      :: 55 of 358
            Pseudo Genes (multiple problems)  :: 51 of 358
            Pseudo Genes (short protein)      :: 4 of 358
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080145.1.
            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..2337
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK8241"
                     /isolation_source="chicken"
                     /db_xref="taxon:562"
                     /plasmid="pPK8241-2kb"
                     /geo_loc_name="Pakistan: Faisalabad"
                     /lat_lon="31.50 N 72.97 E"
                     /collection_date="2020-05-11"
                     /collected_by="Mashkoor Mohsin"
     gene            199..612
                     /locus_tag="KZY05_RS29215"
                     /old_locus_tag="KZY05_29225"
     CDS             199..612
                     /locus_tag="KZY05_RS29215"
                     /old_locus_tag="KZY05_29225"
                     /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_028132811.1"
                     /translation="MGAKFLDQKTGVILEEPEFVKLYIRDLCRVKGLSATQYKIFTFML
                     ANMNTDNVVSFGPRTKEKFLSEHSIKPQTFNNNVSQLIESCLISRIARNEFLVNKKYAV
                     KVDWAKVQKIVWTTTYSNEGIDSTVTIAPKKTD"
                     /name="hypothetical protein"
     gene            complement(702..1127)
                     /gene="mobA"
                     /locus_tag="KZY05_RS29220"
                     /old_locus_tag="KZY05_29230"
     CDS             complement(702..1127)
                     /gene="mobA"
                     /locus_tag="KZY05_RS29220"
                     /old_locus_tag="KZY05_29230"
                     /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_039023338.1"
                     /translation="MTKNKRSGSEVRQRTKVITLRVNNRIANEIRRRAKSEGLTISEYI
                     RTTSLNNEIKQRVPSRYLDELIQLGRMQKKLFDKGKRPKDKEYLDVMHKIISLCAEMKE
                     VTQRISDIYKKMDLIKEEIKAIKKIHKNKYPGSNLFN"
                     /name="mobA"
     Typing          complement(1911..2169)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.528"
                     /coverage="100.0"
                     /evalue="1.5e-65"
ORIGIN
        1 gctcagcggg aatagatata ccgctcagcg ggaaagtttt taccgctgag cggaggttga
       61 aataccgctc agcggtattt caaataccgg aatactgttt ttgttgctaa tcaaataccg
      121 gaaaaaaagt atttactcgg ttgtggaaca tacataagat accgataaaa cggtaactaa
      181 attacctgcg aggtgagaat gggagcgaaa tttttagatc aaaaaactgg cgtaattttg
      241 gaagagccgg agttcgtgaa gctgtatatc cgtgatttat gccgtgttaa agggctatca
      301 gcaacgcaat acaaaatttt tacgttcatg cttgctaata tgaatactga taatgttgtt
      361 tcatttggac caagaaccaa agaaaagttt ttatcagaac attcaattaa accacaaaca
      421 tttaataata atgtgtctca actgattgag tcatgtttaa tttctagaat agccagaaat
      481 gaatttttgg ttaataaaaa atacgcagtt aaagttgatt gggcgaaagt acaaaagata
      541 gtatggacaa caacttacag taatgaaggg attgattcaa cagtgacgat agccccgaaa
      601 aaaacggatt aatttcttat gattgtaaaa gatttcgata aaacaaaatg tcgctaattc
      661 tattataggt ctttaaattt ttatgaagac ctatgttctg ctcaattaaa taagttggaa
      721 cctgggtatt tatttttatg tatttttttt attgctttta tttcttcttt tattaaatcc
      781 atttttttat atatatcaga aattcgctgt gttacttctt tcatttcagc acaaagtgaa
      841 attattttat gcatcacatc cagatactct ttgtccttcg gtctcttccc tttatcaaat
      901 aatttcttct gcatccgacc aagttggatt aattcatcta aatatctgga aggaacgcgc
      961 tgttttattt cattatttaa gcttgttgtc cttatatatt ctgaaatagt cagcccttcg
     1021 ctcttcgctc gccgtctgat ttcgtttgcg attctgttat ttactctaag ggtgataacc
     1081 ttagtcctct gccgtacttc tgaaccgcta cgcttatttt tagtcatcgc aatgattctc
     1141 cattttgcac gtttggggtg tcggggcttg ccctgacagg aggtattctc atgcaagcga
     1201 atgtattcgc ggtatgacga atacacatcc tgtcccattt tccgctgcaa cttttcgacg
     1261 aaaataaaat accgcgtcgt aacctggtat ttctgataca aaaaaatgat gcttcattca
     1321 atattattta cacagatttt aaaaattatt gcttgttatt taataaataa caccgaatta
     1381 attgatgtct ttgttgtctg tcgtttgtgg attattagag gaataaagat tagatcttct
     1441 tggttatata atccattgcc tgttggtaat gcgggattcg tccagagagc aggaggcaaa
     1501 agagcaagat ggtagcatat gcataaaata taactatgtg agttattgat atcgcgttta
     1561 tatattaaaa atataactta acttcgctcc taatctttat ttcatcctag caatgggagc
     1621 attaatcccc gtgcagtgct ccgccagctg ctaacaacct gaaaggcaaa agacacaaca
     1681 aacttgcctg acacagaaaa gcgcgctaca aagcgtctga gcgcgtttcc tcctcgttca
     1741 atctgttcag ttcagtcata gcttgcctgg aaaacctctt ggaaacgcgc tcacccttca
     1801 ccatcgaagc cgccacggtt ccggcagcgc cttgagcgca accggaaacc gtctggggag
     1861 aaccccagac ccccatcgct gtaacaccga cggtctacga ccacctacca accgagtggc
     1921 tgtctgttcc gtgcaaatgg gccttgcagg gggctggcgc ggttcctagc gacctgaaag
     1981 cccctggtta ggggtatcgg cgcgcctaac cttctgaaaa cctctgtaag cgtttttcgc
     2041 gccttccatg ccctgacggg catttaaccc ccgttttgtg cgtctgggag gctttgagcg
     2101 cgtttaaccg gtggccagcg actcgatcgc ctgagatcaa atcgggatcg tcaacgatat
     2161 gcgagaggtg gcaccgctcg ccgcagcccc agcgaccgag ccgctaggct cgcgagtggg
     2221 cgaggaagcg gaagggaacc agtattggca tagtgcactt acgcacgaga tctaagatag
     2281 attcacagac agataggaaa atcaggtgtg acaaggccta gaggcaaact aaatacc
//
