LOCUS       NZ_CP081727             4146 bp    DNA     circular CON 02-NOV-2023
DEFINITION  Escherichia coli strain CX07 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP081727
VERSION     NZ_CP081727.1
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 4146)
  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  JOURNAL   Unpublished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 4146)
  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
            CP081727.1.
            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..4146
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CX07"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="Canada: Alberta"
                     /collection_date="2014/2015"
     gene            88..489
                     /locus_tag="J6O12_RS25525"
                     /old_locus_tag="J6O12_25435"
     CDS             88..489
                     /locus_tag="J6O12_RS25525"
                     /old_locus_tag="J6O12_25435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000135006.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVTRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            1299..2417
                     /gene="wzz(fepE)"
                     /locus_tag="J6O12_RS25530"
                     /old_locus_tag="J6O12_25440"
     CDS             1299..2417
                     /gene="wzz(fepE)"
                     /locus_tag="J6O12_RS25530"
                     /old_locus_tag="J6O12_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243311.1"
                     /GO_component="GO:0016020 - membrane [Evidence IEA]"
                     /GO_process="GO:0009103 - lipopolysaccharide biosynthetic
                     process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LPS O-antigen length regulator Wzz(fepE)"
                     /protein_id="WP_024191316.1"
                     /translation="MFSMKISKISDEHFSNYNMLPNGNEEIDLFDLIRVLWAAKIKIVG
                     VILFFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLGVDFDINRDSAF
                     ALFIKKFQSVNSLNEYMRSSPYVMEIIKKKNISALELHRAIVGLSENMKSVDDNASKKN
                     DKSSLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNELEVKTNVEKEIL
                     ALDEIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDGIATK
                     LNIKKSIKDVSELSGELRNRQYVVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGPSNAI
                     IVILSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="wzz(fepE)"
     gene            3354..3503
                     /locus_tag="J6O12_RS25535"
                     /old_locus_tag="J6O12_25445"
     CDS             3354..3503
                     /locus_tag="J6O12_RS25535"
                     /old_locus_tag="J6O12_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001515742.1"
                     /translation="MPSEYDEQPDATDALFPGEYDLFDLMAHVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            3972..>4142
                     /locus_tag="J6O12_RS25540"
                     /old_locus_tag="J6O12_25450"
                     /pseudo=""
     CDS             3972..>4142
                     /locus_tag="J6O12_RS25540"
                     /old_locus_tag="J6O12_25450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3147..3361
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="3.48e-51"
     Typing          complement(2638..3166)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.545"
                     /coverage="89.0"
                     /evalue="1.2e-144"
ORIGIN
        1 ggacctttgt gagacactcc acgatgatgc ggagcatctt ttccgtacac tgtcctcgag
       61 attggatgca ttacaggatg gtaactgatg gccagagtat ctattagtga ggctgcccga
      121 ctgacgggta agagtagaac aacactgcac aggttaatta aagcaggtga cctgtccacc
      181 tgtagcggtg aacgcaatgc aaaaatggta gatacttcag agcttttacg tgtctttggt
      241 ccctttgaac aaccgaaggg tgaacaccat tctggacagg tctctgaaca gcgtgataca
      301 gcctctgctg accagagtga acaggtgact cgtcatctga aacaggagat tgaacacctg
      361 aacaccttac ttttgtccaa ggattcgcac attgacagcc tgaaacaggc tatgctcctt
      421 cttgaaaatc accaggcaaa attaactgaa tccccggcgc catggtggaa attctggaaa
      481 aaatcctgac cccgtcatgc ttcagttttc ctctccggcc atcccgggga gttcctgaac
      541 cttcccaaaa atcgtcagat ctctgaacgc tcctcaccac taaaaatacc cacaccctac
      601 gcaaaattaa aattttgaag ataactcatt aatatcagtt agttgtgggt tattaaatta
      661 cgcagtatta ctttctgtaa ggtgaatcca agtcgtcggc gattcgtgta cgacttgctg
      721 acgactcgtc atagagtcat cgacgactca cttaagacta tcagtaactt atgatgactt
      781 gactctagag ttgaatcgtc attttggtgt ttttttgacc tttacgactc tagagtcaag
      841 tcacgagtcg aatcgccggt gaattgtctg gtgagtcgtc cggcgacttg ccataacgtg
      901 attgccggcc gtcgacgaac ccgattcctg atcgtgctga aaaccggttt tccggctgcg
      961 ccggcaacgc ttcacggcca cgcaataaat tgcgtccccg ttcaccgttt tcggatagga
     1021 agaacgccgg aaacaggact taccctggct gaatggcgtg aattttcgcg ctatgcactt
     1081 gcgtgcatac tcatgcatgc cgtaaaaaca gagcctgcgc gtttctggcg ggttttcggg
     1141 tggtttgttg cctgttttac cggtttcccg tcagaaacgc cctgaggccg ttttagtggt
     1201 gcgtacaatt aaaatgttat gttaaatgtc tgctgaatgg tttttaggat ttttcctaac
     1261 atatgataga ataaaaaaac catatgttaa tatattgtat tttttcaatg aaaatctcaa
     1321 agatatctga cgaacatttt tctaattaca acatgttgcc gaatggtaat gaagaaattg
     1381 acctttttga cttgattaga gttttatggg cagcaaaaat aaaaattgtt ggggtgattc
     1441 tattttttgc ttgtattggc tttcttgttt cttttgtttt gccacaaaaa tggactagtt
     1501 ctgctgtggt tactcctgct gagtctgttc aatggagtga attaaataag gagctttcca
     1561 agcttcatgt tctgggagtg gattttgata tcaatcgtga tagcgcattt gctctgttta
     1621 ttaagaaatt tcagtccgtt aattcgttga atgagtatat gagatcatct ccttatgtta
     1681 tggagataat taaaaagaag aacattagcg ctctcgaact gcatcgtgca attgttgggt
     1741 tgagtgaaaa tatgaagtcg gttgatgata atgccagtaa gaaaaacgac aagtcatcat
     1801 tgtatgtatc atggactctg agttttactg ctccaacaag taaagaagct cacgatgtgt
     1861 tgtctgggta tattaattat gtttcttccc ttgttgtaag ggatttgatg gaagatataa
     1921 gaaatgaact agaagttaaa actaatgttg aaaaagaaat tcttgcactg gatgagataa
     1981 aaattagaaa ccagctgaat gcagatattc gacgcctcaa ttattcactg gaggttgcta
     2041 atgcggctgg aataaaaaaa cctgtataca gcaatggtca gattatgaag gatgatccag
     2101 attttcctgt ggctctcggt tctgatggta tagcaactaa attgaacatc aaaaaatcaa
     2161 tcaaggatgt ttcggaattg agtggggagt tgcgaaatcg tcaatatgtt gtgaatcaat
     2221 tggttgtggc gaaagtgggg gatgttgatt ttatgccgtt tcagtatcaa ttgagcccaa
     2281 cgttaccggt cagaaaggat gggccaagta atgccataat tgtaattctt tcttctgtca
     2341 ttggagggat gcttgcatgt ggctatatac ttttacgtca tgccatggag gccagaaaga
     2401 tgagtgtgat tgagtaaaag ttgtgctgat gcatcatttt ataagcaact tttataaaaa
     2461 gttcaaagga tcttcttgag atcattccct tacagccgta gtcttctact ctagaaaacg
     2521 aaaaaaccac ctggggaggt ggtttttcga aggttcagta agttggggaa cttctgaacc
     2581 gtggtaacag tcttgtgcga gacatgtcac caaatctgtc cttctagtgt agcctcagta
     2641 aggctgccac ttcaagaact ctcaatacat ctctcgcaca tcctgtttac cagtggccgc
     2701 tgccaatggc gttaagtcgt gtcttaccgg gttggactca agacgatagt taccggataa
     2761 ggcgcagcgg tcgggctgaa cggggggttc ttgcatacag cccagcttgg agcgaactgt
     2821 ctaaacggaa cggggcgtgg tgatttaggt aaagcttcca ccactacacg gatgccgcag
     2881 gacgggaaca ggagagcgca agagggagcc accaggggga aacgcctggt atctttatag
     2941 tcctgtcggg tttcgccacc actgatttga gcgtcagatt tcgtgatgct tgtcaggggg
     3001 gcggagccta tggaaaaacg gctttgccgc ggccttatcg tatccctgtt aagtttcttc
     3061 ctggcatcca ccaggaaata aatttccgcc ccattcgtaa gcctgcaccg ctcgccgcag
     3121 ccgaacgacc gagcgcagcg agtcagtgag cgaggaagcg gaatatcacc tgaaccagca
     3181 tcttctcctg acgccggtaa gcctcatttc actcctgcca catgaagcac tttggcaaat
     3241 caccacttcg gtttaaaata tttagccagt atgcactccg ctagcgctac gtgactggtt
     3301 cagggctgcg ccccgaaacc cgctaacacc cctcagctac tggatatcac accatgccat
     3361 ctgagtatga tgaacaaccg gatgcgactg atgctctgtt tcccggcgaa tatgaccttt
     3421 ttgacttaat ggctcatgtt actgaagaga acctgcacgc cccggtggat tctggcccgc
     3481 ctgtcggccg ggaagcgtta tagctttttc gctggccagc gtacatgtaa tacgctggta
     3541 ttacatgtta tttgtttatt ttcatgttgt tacagatgat tgtaatacgt tgcgtattac
     3601 gctaatacac gaaataactc catttttttc atttaattca tgcagttgcg ataaaaatcg
     3661 cggctgcgtt aggtgtatga ccatttaagg ggcaaaaaat tatcattctg gctgggtgat
     3721 ctgcgcaggt taaggatcat cggcgacgaa aaagcgtctt taactgcttc gttcatgcaa
     3781 gcatgaacgg attatttttc cagactacag gaagactaca aaagttgatg atttaatcct
     3841 gcgttttagt gcgatgacta cagataaact acaaaataac tacaggataa cctcagatcc
     3901 gttctctgaa ccattcgtac atccgacccc cttaccggtt tatactgagc actgatgctc
     3961 tgagggccct tatgacgaaa caacagaaaa cagcgctgaa catggctaaa ttcatccaga
     4021 atcagtctct gctcctgctg gagaagctta acgagcttga tctcgatgtt gaggcggacc
     4081 tttgtgagac actccacgat gatgcggagc atcttttccg tacactgtcc tcgagattgg
     4141 atgcat
//
