LOCUS       NZ_CP081722             4087 bp    DNA     circular CON 02-NOV-2023
DEFINITION  Escherichia coli strain CX05 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP081722
VERSION     NZ_CP081722.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18446039
            Assembly: GCF_019971035.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4087)
  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  JOURNAL   Unpublished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 4087)
  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                   :: 138x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/02/2023 04:01:54
            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)                     :: 5,148
            CDSs (total)                      :: 5,033
            Genes (coding)                    :: 4,779
            CDSs (with protein)               :: 4,779
            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)              :: 254
            CDSs (without protein)            :: 254
            Pseudo Genes (ambiguous residues) :: 0 of 254
            Pseudo Genes (frameshifted)       :: 71 of 254
            Pseudo Genes (incomplete)         :: 170 of 254
            Pseudo Genes (internal stop)      :: 47 of 254
            Pseudo Genes (multiple problems)  :: 33 of 254
            Pseudo Genes (short protein)      :: 3 of 254
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP081722.1.
            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..4087
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="CX05"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="Canada: Alberta"
                     /collection_date="2014/2015"
     gene            join(3812..4087,1..855)
                     /gene="wzz(fepE)"
                     /locus_tag="J6O38_RS25530"
                     /old_locus_tag="J6O38_25435"
     CDS             join(3812..4087,1..855)
                     /gene="wzz(fepE)"
                     /locus_tag="J6O38_RS25530"
                     /old_locus_tag="J6O38_25435"
                     /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_223631574.1"
                     /translation="MFSMKISKISDEHFSNYNMLPNGNEEIDLFDLIRVLWAAKIKIVG
                     VILFFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLLHVLGVDFDINR
                     DSAFALFIKKFQSVNSLNEYMRSSPYVMEIIKKKNISALELHRAIVGLSENMKSVDDNA
                     SKKNDKSSLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNELEVKTNVE
                     KEILALDEIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDG
                     IATKLNIKKSIKDVSELSGELRNRQYVVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGP
                     SNAIIVILSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="wzz(fepE)"
     gene            1792..1941
                     /locus_tag="J6O38_RS25535"
                     /old_locus_tag="J6O38_25440"
     CDS             1792..1941
                     /locus_tag="J6O38_RS25535"
                     /old_locus_tag="J6O38_25440"
                     /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            2410..2601
                     /locus_tag="J6O38_RS25540"
                     /old_locus_tag="J6O38_25445"
     CDS             2410..2601
                     /locus_tag="J6O38_RS25540"
                     /old_locus_tag="J6O38_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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_000166329.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCETLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2601..3002
                     /locus_tag="J6O38_RS25545"
                     /old_locus_tag="J6O38_25450"
     CDS             2601..3002
                     /locus_tag="J6O38_RS25545"
                     /old_locus_tag="J6O38_25450"
                     /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"
     Typing          1585..1799
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="3.48e-51"
     Typing          complement(1076..1604)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.545"
                     /coverage="89.0"
                     /evalue="1.2e-144"
ORIGIN
        1 cttcatgttc tgggagtgga ttttgatatc aatcgtgata gcgcatttgc tctgtttatt
       61 aagaaatttc agtccgttaa ttcgttgaat gagtatatga gatcatctcc ttatgttatg
      121 gagataatta aaaagaagaa cattagcgct ctcgaactgc atcgtgcaat tgttgggttg
      181 agtgaaaata tgaagtcggt tgatgataat gccagtaaga aaaacgacaa gtcatcattg
      241 tatgtatcat ggactctgag ttttactgct ccaacaagta aagaagctca cgatgtgttg
      301 tctgggtata ttaattatgt ttcttccctt gttgtaaggg atttgatgga agatataaga
      361 aatgaactag aagttaaaac taatgttgaa aaagaaattc ttgcactgga tgagataaaa
      421 attagaaacc agctgaatgc agatattcga cgcctcaatt attcactgga ggttgctaat
      481 gcggctggaa taaaaaaacc tgtatacagc aatggtcaga ttatgaagga tgatccagat
      541 tttcctgtgg ctctcggttc tgatggtata gcaactaaat tgaacatcaa aaaatcaatc
      601 aaggatgttt cggaattgag tggggagttg cgaaatcgtc aatatgttgt gaatcaattg
      661 gttgtggcga aagtggggga tgttgatttt atgccgtttc agtatcaatt gagcccaacg
      721 ttaccggtca gaaaggatgg gccaagtaat gccataattg taattctttc ttctgtcatt
      781 ggagggatgc ttgcatgtgg ctatatactt ttacgtcatg ccatggaggc cagaaagatg
      841 agtgtgattg agtaaaagtt gtgctgatgc atcattttat aagcaacttt tataaaaagt
      901 tcaaaggatc ttcttgagat cattccctta cagccgtagt cttctactct agaaaacgaa
      961 aaaaccacct ggggaggtgg tttttcgaag gttcagtaag ttggggaact tctgaaccgt
     1021 ggtaacagtc ttgtgcgaga catgtcacca aatctgtcct tctagtgtag cctcagtaag
     1081 gctgccactt caagaactct caatacatct ctcgcacatc ctgtttacca gtggccgctg
     1141 ccaatggcgt taagtcgtgt cttaccgggt tggactcaag acgatagtta ccggataagg
     1201 cgcagcggtc gggctgaacg gggggttctt gcatacagcc cagcttggag cgaactgtct
     1261 aaacggaacg gggcgtggtg atttaggtaa agcttccacc actacacgga tgccgcagga
     1321 cgggaacagg agagcgcaag agggagccac cagggggaaa cgcctggtat ctttatagtc
     1381 ctgtcgggtt tcgccaccac tgatttgagc gtcagatttc gtgatgcttg tcaggggggc
     1441 ggagcctatg gaaaaacggc tttgccgcgg ccttatcgta tccctgttaa gtttcttcct
     1501 ggcatccacc aggaaataaa tttccgcccc attcgtaagc ctgcaccgct cgccgcagcc
     1561 gaacgaccga gcgcagcgag tcagtgagcg aggaagcgga atatcacctg aaccagcatc
     1621 ttctcctgac gccggtaagc ctcatttcac tcctgccaca tgaagcactt tggcaaatca
     1681 ccacttcggt ttaaaatatt tagccagtat gcactccgct agcgctacgt gactggttca
     1741 gggctgcgcc ccgaaacccg ctaacacccc tcagctactg gatatcacac catgccatct
     1801 gagtatgatg aacaaccgga tgcgactgat gctctgtttc ccggcgaata tgaccttttt
     1861 gacttaatgg ctcatgttac tgaagagaac ctgcacgccc cggtggattc tggcccgcct
     1921 gtcggccggg aagcgttata gctttttcgc tggccagcgt acatgtaata cgctggtatt
     1981 acatgttatt tgtttatttt catgttgtta cagatgattg taatacgttg cgtattacgc
     2041 taatacacga aataactcca tttttttcat ttaattcatg cagttgcgat aaaaatcgcg
     2101 gctgcgttag gtgtatgacc atttaagggg caaaaaatta tcattctggc tgggtgatct
     2161 gcgcaggtta aggatcatcg gcgacgaaaa agcgtcttta actgcttcgt tcatgcaagc
     2221 atgaacggat tatttttcca gactacagga agactacaaa agttgatgat ttaatcctgc
     2281 gttttagtgc gatgactaca gataaactac aaaataacta caggataacc tcagatccgt
     2341 tctctgaacc attcgtacat ccgaccccct taccggttta tactgagcac tgatgctctg
     2401 agggccctta tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt catccagaat
     2461 cagtctctgc tcctgctgga gaagcttaac gagcttgatc tcgatgttga ggcggacctt
     2521 tgtgagacac tccacgatga tgcggagcat cttttccgta cactgtcctc gagattggat
     2581 gcattacagg atggtaactg atggccagag tatctattag tgaggctgcc cgactgacgg
     2641 gtaagagtag aacaacactg cacaggttaa ttaaagcagg tgacctgtcc acctgtagcg
     2701 gtgaacgcaa tgcaaaaatg gtagatactt cagagctttt acgtgtcttt ggtccctttg
     2761 aacaaccgaa gggtgaacac cattctggac aggtctctga acagcgtgat acagcctctg
     2821 ctgaccagag tgaacaggtg actcgtcatc tgaaacagga gattgaacac ctgaacacct
     2881 tacttttgtc caaggattcg cacattgaca gcctgaaaca ggctatgctc cttcttgaaa
     2941 atcaccaggc aaaattaact gaatccccgg cgccatggtg gaaattctgg aaaaaatcct
     3001 gaccccgtca tgcttcagtt ttcctctccg gccatcccgg ggagttcctg aaccttccca
     3061 aaaatcgtca gatctctgaa cgctcctcac cactaaaaat acccacaccc tacgcaaaat
     3121 taaaattttg aagataactc attaatatca gttagttgtg ggttattaaa ttacgcagta
     3181 ttactttctg taaggtgaat ccaagtcgtc ggcgattcgt gtacgacttg ctgacgactc
     3241 gtcatagagt catcgacgac tcacttaaga ctatcagtaa cttatgatga cttgactcta
     3301 gagttgaatc gtcattttgg tgtttttttg acctttacga ctctagagtc aagtcacgag
     3361 tcgaatcgcc ggtgaattgt ctggtgagtc gtccggcgac ttgccataac gtgattgccg
     3421 gccgtcgacg aacccgattc ctgatcgtgc tgaaaaccgg ttttccggct gcgccggcaa
     3481 cgcttcacgg ccacgcaata aattgcgtcc ccgttcaccg ttttcggata ggaagaacgc
     3541 cggaaacagg acttaccctg gctgaatggc gtgaattttc gcgctatgca cttgcgtgca
     3601 tactcatgca tgccgtaaaa acagagcctg cgcgtttctg gcgggttttc gggtggtttg
     3661 ttgcctgttt taccggtttc ccgtcagaaa cgccctgagg ccgttttagt ggtgcgtaca
     3721 attaaaatgt tatgttaaat gtctgctgaa tggtttttag gatttttcct aacatatgat
     3781 agaataaaaa aaccatatgt taatatattg tattttttca atgaaaatct caaagatatc
     3841 tgacgaacat ttttctaatt acaacatgtt gccgaatggt aatgaagaaa ttgacctttt
     3901 tgacttgatt agagttttat gggcagcaaa aataaaaatt gttggggtga ttctattttt
     3961 tgcttgtatt ggctttcttg tttcttttgt tttgccacaa aaatggacta gttctgctgt
     4021 ggttactcct gctgagtctg ttcaatggag tgaattaaat aaggagcttt ccaagcttca
     4081 tgttctg
//
