LOCUS       NZ_CP081728             3213 bp    DNA     circular CON 02-NOV-2023
DEFINITION  Escherichia coli strain CX07 plasmid unnamed4, complete sequence.
ACCESSION   NZ_CP081728
VERSION     NZ_CP081728.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18446041
            Assembly: GCF_019971055.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3213)
  AUTHORS   Yang,X., Tran,F. and Zhang,P.
  TITLE     Genetic characterization of Escherichia coli recovered from beef
            production environments, which harbor the locus of heat resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3213)
  AUTHORS   Yang,X., Tran,F. and Zhang,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-AUG-2021) Food Safety, Agriculture & Agri-Food Canada,
            6000 C & E Trail, Lacombe, Alberta T4L 1W1, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 26-JAN-2021
            Assembly Method                   :: flye v. 2.8.2
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 82x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/02/2023 04:26:11
            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)                     :: 5,147
            CDSs (total)                      :: 5,032
            Genes (coding)                    :: 4,783
            CDSs (with protein)               :: 4,783
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 249
            CDSs (without protein)            :: 249
            Pseudo Genes (ambiguous residues) :: 0 of 249
            Pseudo Genes (frameshifted)       :: 67 of 249
            Pseudo Genes (incomplete)         :: 170 of 249
            Pseudo Genes (internal stop)      :: 47 of 249
            Pseudo Genes (multiple problems)  :: 34 of 249
            Pseudo Genes (short protein)      :: 3 of 249
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP081728.1.
            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..3213
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CX07"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="Canada: Alberta"
                     /collection_date="2014/2015"
     gene            773..907
                     /locus_tag="J6O12_RS25805"
                     /old_locus_tag="J6O12_25455"
     CDS             773..907
                     /locus_tag="J6O12_RS25805"
                     /old_locus_tag="J6O12_25455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072035952.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDKAPLAAATGNRFRGGES"
                     /name="replication initiation protein"
     gene            complement(1328..1540)
                     /locus_tag="J6O12_RS25545"
                     /old_locus_tag="J6O12_25460"
     CDS             complement(1328..1540)
                     /locus_tag="J6O12_RS25545"
                     /old_locus_tag="J6O12_25460"
                     /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_039509481.1"
                     /translation="MGDFERTYGAGADFDRIIDENNSEYFRDERQKAKNSKKEFSSFQD
                     ALVWAKANPGKTIVRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            complement(1650..1916)
                     /locus_tag="J6O12_RS25550"
                     /old_locus_tag="J6O12_25465"
     CDS             complement(1650..1916)
                     /locus_tag="J6O12_RS25550"
                     /old_locus_tag="J6O12_25465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000262326.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMDLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRILCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(1900..2124)
                     /locus_tag="J6O12_RS25555"
                     /old_locus_tag="J6O12_25470"
     CDS             complement(1900..2124)
                     /locus_tag="J6O12_RS25555"
                     /old_locus_tag="J6O12_25470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6290 family protein"
                     /protein_id="WP_000879771.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="DUF6290 family protein"
     gene            2670..2855
                     /locus_tag="J6O12_RS25560"
                     /old_locus_tag="J6O12_25475"
     CDS             2670..2855
                     /locus_tag="J6O12_RS25560"
                     /old_locus_tag="J6O12_25475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_054626234.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLEKLDVLDLDDEAADCERMHEQAE
                     ALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2903..3130)
                     /locus_tag="J6O12_RS25565"
                     /old_locus_tag="J6O12_25480"
     CDS             complement(2903..3130)
                     /locus_tag="J6O12_RS25565"
                     /old_locus_tag="J6O12_25480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001046776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_206659768.1"
                     /translation="MFGFSPGELMNLCPDERLLFVRMISAMLRRSGGDAGAVMFEAYRH
                     IVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     Typing          393..882
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.13"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 aacatcacag gtaaacagaa acgtcgggtc gatcgggaaa ttctttcccg gacggcgcgg
       61 ggttgggcaa gccgcaggcg cgtcagtgct tttagcgggt gtcggggcgc agccctgaac
      121 cagtcacgta gcgctagcgg agtgtatact ggctaaactt cagagatgcc aaggaaggga
      181 caggatatgt gttgtagcac cgccaccacg gtggcgatac tccaaaacgc ctggtcaggg
      241 cacagccccg acaccccaga gccgactgta ggtcactgga cgaacgcgga ggaatgatgt
      301 cggatgacgt cattttgcgg cgtttgccct atcctgcatc gtattaaaaa atgcagctat
      361 ggcgcgtacg gtgccaaaga taagcccgga gatattccgc ttcctcgctc actgactcgc
      421 tccgctcggt cgttcggctg cggcgagcgg taccggctta ctggcggggc ggaaatttcc
      481 tggcatcttc caggaagaag cttaacaggg aagcaagaag gccacggcga agccgttttt
      541 ccataggctc cgcccccctg acaagcatca cgaaatctga cgctcaaatc agtggtggcg
      601 aaacccgaca ggacttaaag ataccaggcg tttccccctg gtggctccct cgtgcgctct
      661 cctgttcctg cctttcggtt taccggtgtc attccgctgt tatggccgcg tttatctcat
      721 tccacgcctg acactcagtt ccgggtaggc agttcgctcc aagctggact gtatgcacga
      781 accccccgtt cagtccgact gctgcgcctt atccggtaac tatcgtcttg agtccaaccc
      841 ggaaagacac gacaaagcgc cactggcagc agccactggt aacaggttta gaggaggaga
      901 gtcttgaaat ttcgggtgcg ataaggctac actgaaagga ctattttgtg actgtgctcc
      961 tccaagccag ttaccgcggt tcaaaagagc gtcaactctt gcgaaccttc gaaaaagcca
     1021 ccttgccggg tggttttttc gtttacagag ctaagagatt acgattctcc ctaaatgatc
     1081 tcaagaagat ccgtttaaaa aagcgggttt tatggttgga tgaagttcgt cttacccagt
     1141 cacatattag atttatttga attactacta ggtttcgtaa gccatgcaag aattcctgta
     1201 actaacaaaa taggccctgc aatgtacgta acatagactc caacatacga cactgtgaaa
     1261 catatgagta cgtatatagc cagtgttgtc caaaaaatga ctgccgtttt acagtgaatc
     1321 cactctttca tttttcaata aatcccacac cgtctggaga tcttactatc gttttaccag
     1381 gattagcttt cgcccaaacc aaagcatctt gaaaagaaga gaattctttt ttcgaatttt
     1441 tagctttttg gcgctcatct cgaaaatatt cgctgttatt ctcatcaatt atccgatcaa
     1501 aatcagcacc agctccgtag gtacgctcaa aatcccccat ttcctacccc cataaattta
     1561 ataaaaaaac agatttaaaa tatccaacag acactcttat ttaccataac atccgttgtc
     1621 agcatcaaaa aaagcccgca tagcgggctt cagtcgtaaa cttcgcggcg atggccaatg
     1681 gtggcggcaa ggataaccag ctcgtcatcc cggatctcac acagaatgcg ataatctccc
     1741 acccgatagc gccagaactc gcccagctca cctttgagcg gcttccctga ctggcgagga
     1801 tcggcagcaa ctgcaatgcg taaatccata aaatccacaa tccgtcgtgc gttctgtttg
     1861 tccatcttgc gtaacgattt gagcgcccgg tcggaatagt taatcgtcca gaccaagtga
     1921 cttcctcacg tcttcagacg aatgcacggc ttcatcacca cggcgaacgc gtgcggcagt
     1981 ttctgctgaa agataataat cttccaggtc ttccagatgc gccagtattg cttcccgcgc
     2041 atagaacgtc tttgttctgc cggtttgctt cgccagcgag tccagacggg actcaatctc
     2101 atcagataac cggatagcaa gcatataaac ctcctgaaca ccatttgata tacatgtata
     2161 gcaatagtat cgcaatcaac ctaaaagaac aaaaaataat cttgctggcc cctcttgata
     2221 atccgtaacg ctgtcaatat atccagcttg agggctttcc tcttaactat tgaaaggata
     2281 acgattatgg gtcttaagcc gggtccgaaa cgaattgccg attcaacagg ggaacctgat
     2341 aaacgccagc gtgacaataa aaaaacgccg gggaatactg acaaattgaa acccagcaaa
     2401 tcctcaaaaa aataagtcag tagttaaaag ccctccgggg ctttttttgt acccgcagat
     2461 cagtctgatt gaacataaca tctgttgcgt gcaccgcctg agaggctctc agggcgtttc
     2521 tacgacctca cctgcaaaag aacacatctt accccctgaa aaccgctcag aaacgcgctg
     2581 atgatttctg cgtacctgca tggctatgca ctcaagtgaa tgaagtaaga tttcagtctg
     2641 cgatcaccat aaaaccggga aaaagccgta tgacaaaaca ggaatcagcc gcactgaaca
     2701 tggcaaaatt tatccgggcg cagtcgctgc tgctcgaaaa actcgacgtg ctcgatcttg
     2761 atgacgaggc agccgactgt gagcgaatgc acgaacaggc agaagcgctt tatcagaagc
     2821 tgagcgcacg cttcggtata caggacggcg aataaagaga cgaaaagaac gctcacttag
     2881 acgaaaagcg tatccagggc aactatgtat atccaccgtg tacatagtca tgcctgacgc
     2941 tttcgagcag gtcgagcatg caggaacgac gagcttgatt ggtatcggac acaatatggc
     3001 gatacgcctc aaacataaca gcacccgcat caccgcccga acggcgaagc atagcggaaa
     3061 tcatccgcac aaagagcaga cgttcatcgg ggcaaaggtt cataagttct cctggtgaaa
     3121 aaccaaacat gaaagcaccc atctattaac gtcagctgtg aacgcttcat tagaagaaaa
     3181 taggtaaacc cgggaaaaag atccaaacgt taa
//
