LOCUS       NZ_CP075746             3272 bp    DNA     circular CON 16-AUG-2023
DEFINITION  Escherichia coli strain CPF6 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP075746
VERSION     NZ_CP075746.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN19296497
            Assembly: GCF_024499155.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3272)
  AUTHORS   Khine,N.O.
  TITLE     Colistin resistant E. coli isolates in pigs and pig farm environment
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3272)
  AUTHORS   Khine,N.O.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-MAY-2021) Veterinary Microbiology, Chulalongkorn
            University, 39, Henry Dunant Road, Faculty of Veterinary Science,
            Bangkok, Bangkok 10400, Thailand
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. galaxy verion 3.12.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/16/2023 05:13:02
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,189
            CDSs (total)                      :: 5,067
            Genes (coding)                    :: 4,851
            CDSs (with protein)               :: 4,851
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 216
            CDSs (without protein)            :: 216
            Pseudo Genes (ambiguous residues) :: 0 of 216
            Pseudo Genes (frameshifted)       :: 66 of 216
            Pseudo Genes (incomplete)         :: 158 of 216
            Pseudo Genes (internal stop)      :: 32 of 216
            Pseudo Genes (multiple problems)  :: 42 of 216
            Pseudo Genes (short protein)      :: 4 of 216
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075746.1.
            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..3272
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CPF6"
                     /isolation_source="Pig feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="Thailand: Bangkok"
                     /collection_date="2018-09-05"
                     /note="mcr-3"
     gene            395..1234
                     /locus_tag="KKZ13_RS25830"
                     /old_locus_tag="KKZ13_25640"
     CDS             395..1234
                     /locus_tag="KKZ13_RS25830"
                     /old_locus_tag="KKZ13_25640"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677176.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EcsC family protein"
                     /protein_id="WP_000546749.1"
                     /translation="MHIEEEDLRALERAVELLAQDTITETLTQLVGTPIDYLMSKLPKG
                     AEKKIYSLVEKSLNKAANAALWSLDNEPNRIASTKTNKFFAALSGAIGGAFGFSALAIE
                     LPVSTTIMLRSIADIARSEGFDLDRIDTKLECLAVFSYGGPSEDDDAVNTAYYATRNLT
                     AEIVQDLSKEISNITVKNAASTQTGKWLASLIEKVATRFGIVITEKMAAQAAPVIGALA
                     GATLNTMFTDYYQDMARGHFIVKRLERKYGDELIKAEYIKISDKLTNQNQRKHLNSN"
                     /name="EcsC family protein"
     gene            2345..2539
                     /locus_tag="KKZ13_RS25835"
                     /old_locus_tag="KKZ13_25645"
     CDS             2345..2539
                     /locus_tag="KKZ13_RS25835"
                     /old_locus_tag="KKZ13_25645"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(1831..2086)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.473"
                     /coverage="89.0"
                     /evalue="5.81e-95"
     Typing          complement(2211..2309)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(2613..2697)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="100.0"
                     /evalue="6.569999999999999e-34"
     Typing          2721..3266
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.628"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ccttaacgcc actggcagca gccactggta actggacaag gtggattgag atattaagag
       61 ttcttgaagt ggtggcctaa ctgcggctac actagaagga cagtatttgg tatctgtgct
      121 ccaccaagcc agttacccgg ttaagcagtc cccaactgac ttaaccttcg actaaaccgc
      181 ctccccaggc ggttttttcg tttactggca gcagattacg cgcagaaaaa aaggatctca
      241 agaggatcct ttgatctttt catcactcct acttcacgga caacaatgat atcggcatct
      301 cgcccgttga atcactgaat tctcccaagg taagatccca aaacagacca cttacaaaaa
      361 gtaggctaca gattgattca taagggattt ttacatgcat attgaagaag aagatctgcg
      421 cgctttagaa agagccgtag aattattagc acaagataca attacagaaa cactaaccca
      481 attagttgga accccaatag attacttaat gagtaaactt cccaaaggag cagaaaagaa
      541 aatttatagc ctagtagaaa aatctctcaa caaagctgct aatgcagcct tatggagcct
      601 agacaatgaa cctaaccgaa tagcatcaac taagacaaat aagttctttg ctgccttatc
      661 tggagccatt ggtggtgctt ttggcttttc tgcattagca attgagttac cagtttcaac
      721 gacaattatg cttcgttcaa ttgcggacat agcaagaagt gaaggttttg atctagatag
      781 gattgataca aaactagagt gtttagcggt gttttcctac ggaggaccat ctgaggacga
      841 tgatgcagtt aatactgcat actatgcaac aaggaatttg actgctgaga tcgtacaaga
      901 tttatccaaa gaaatttcta acattactgt caagaacgct gcttcaacac aaacaggaaa
      961 atggttagct tcgttaatag aaaaagttgc gacaagattt ggtatagtta ttacagaaaa
     1021 aatggcagct caagctgctc ctgttattgg agcactggct ggagccacat taaacacgat
     1081 gtttaccgac tattatcaag atatggctcg aggtcatttt attgtcaaaa gacttgagag
     1141 aaaatatggt gatgaattga taaaggctga atatataaaa atctcagata aactcaccaa
     1201 tcagaaccaa cggaagcatt tgaacagcaa ctaacggttt cactaagtgc atagcaccgt
     1261 tatggccagg tgctatggag ggtgtcaact cacgaacaat cacacaaaca acaaaattat
     1321 ttatgatttt attttaaaca ttatattcgc aacaactgca ttaatgaaat tggctttttt
     1381 tgaatcaact aaaacagagc cacaatttgg gcactgacta aaagcattcc ccccatcaac
     1441 taaaacatcg ctacatttag gcacagtttt acaccaatgg catgataaac atttataggt
     1501 catagccatt ctaatcatta ccaatttcaa ctccacgcac aaaataaata gttaacccag
     1561 catctacgaa tatcaatcat atttaccata atcccgtatt gcgcgcaccg ctaaaacgcg
     1621 ctgaacgcga ttctgccgca aacaccgcaa aaagagatgt tttccccggg gtaaaccgga
     1681 aaaatgcgtc aggctcgctt tcagctcact gcatagctat gcatgaaagt gaatgacgat
     1741 cggtttgggc gcatacagtg cccatgagac acattttcgg acattttcag ttcgtgaatc
     1801 cctgactcat tgctacatat ctgaacagac acccctggca gcgcccccag gggcgtcctg
     1861 taaaaaaaca caccgcgcag ctagcagcac ccctaatata aaatgatgtt ttttatgaaa
     1921 atagtcagta ccacccctaa aaagcggtgt cggcgcggtg ttgtagctgc gccaacaccg
     1981 cttttttaaa tatcacaaag agagcaagaa gaactaattt gtcataactc tctatttata
     2041 aagaaaaatc agcaaaaaat tgtttttgcg tggggtgtgg gcatttcagg catgagaaca
     2101 gactcgcgtt tttccggagt atcagcggaa ttattgatta agaaacactc gacgcagagc
     2161 gaaattttat gcaacagcgg ctgcactgca cagggattat ttatcagttg atatgctgtg
     2221 ccatgatacg tcctaaagaa acaggacagg atgtgcaatt gtaataccgt cgcccgcaac
     2281 gtcttacaat taccacctgc tcagggtccc cccgacaccc ggaactgacg gagaacaacg
     2341 gaaggtgaac aaacaacaac aaactgcgct gaatatggcg cgatttatca aaagccagag
     2401 cctgacactg cttgaaaaac tggatgctct ggatgccgac gaacaggcgg ccatgtgcga
     2461 acgactgcac gaactcgcag aagaactcca gaacagcatc cagattcgct ttgaggccga
     2521 aagtgaaaca ggaacataac gaagctgacg gaggcggtca cggctttccc gtgggcgttt
     2581 tcgtcagcag acaagcccgt cagggcgcgt cagggggttt cggggcgaag ccctgaacca
     2641 gtcacgtagc gatagcggag tgtatactgg cttagccatg cggcatcagt gcggattgta
     2701 tgaaaagtac gccatgccgg gtgtgaaatg ccgcacagat gcgtaaggag aaaatgcacg
     2761 tccaggcgct cttccgcttc ctcgctcact gactcgctac gctcggtcgt tcggctgcgg
     2821 cgagcggtgc cggctcactc aaaggcggta atacggttat ccacagaatc aggggataag
     2881 gccggaaaga acatgtgagc aaaaaggcaa agggcaacga aaggccgcgc cgctggcgtt
     2941 tttccatagg ctccgccccc ctgacgagca tcacaaaaat cgacgctcaa gtcagaggtg
     3001 gcgaaacccg acaggactat aaagatacca ggcgtttccc cctggaagct ccctcgtgcg
     3061 ctctcctgtt ccgaccctgc cgcttaccgg atacctgtcc gcctttctcc cttcgggaag
     3121 cgtggcgctt tctcatagct cacgctgttg gtatctcagt tcggtgtagg tcgttcgctc
     3181 caagctgggc tgtgtgcacg aaccccccgt tcagcccgac cgctgcgcct tatccggtaa
     3241 ctatcgtctt gagtccaacc cggtaagaca cg
//
