LOCUS       NZ_CP122698             3081 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Escherichia coli strain ETEC4064 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP122698
VERSION     NZ_CP122698.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549641
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3081)
  AUTHORS   Vereecke,N., Van Hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Virotyping and genetic antimicrobial susceptibility testing of
            porcine ETEC/STEC strains and associated plasmid types
  JOURNAL   Front Microbiol 14, 1139312 (2023)
   PUBMED   37143544
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3081)
  AUTHORS   Vereecke,N., Van hoorde,S., Sperling,D., Theuns,S., Devriendt,B. and
            Cox,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-APR-2023) Department of Pathobiology, Pharmacology and
            Zoological Medicine, Universiteit Gent, Salisburylaan 133, Merelbeke
            9820, Belgium
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: Trycycler; minimap2; medaka v. v0.5.3; v2.20;
            v1.5.0
            Genome Representation        :: Full
            Expected Final Version       :: Yes
            Genome Coverage              :: 323x
            Sequencing Technology        :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Name              :: GCF_030165975.1-RS_2024_06_20
            Annotation Date              :: 06/20/2024 04:17:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision :: 6.7
            Features Annotated           :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                :: 3
            CDSs (total)                 :: 3
            Genes (coding)               :: 3
            CDSs (with protein)          :: 3
            Genes (RNA)                  :: 0
            tRNAs                        :: 0
            ncRNAs                       :: 0
            Pseudo Genes (total)         :: 0
            CDSs (without protein)       :: 0
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122698.1.
            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..3081
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC4064"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed1"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            85..1194
                     /gene="wzz(fepE)"
                     /locus_tag="QDW59_RS00005"
                     /old_locus_tag="QDW59_25280"
     CDS             85..1194
                     /gene="wzz(fepE)"
                     /locus_tag="QDW59_RS00005"
                     /old_locus_tag="QDW59_25280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001421676.1"
                     /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_053266246.1"
                     /translation="MKISKVSDEHFSNYNMLPNGNEGIDLFGLISVLWAAKIKIVGVIL
                     FFACIGFLVSFVLPQKWTSSAVVTPAESVQWSELNKELSKLHVLGVDFDINRDNAFDLF
                     IKKFQSVNSLNEYMRSSPYVMEMIKKNNISALELHRAIVELSKNMKSVDDNTSKKNDKS
                     SLYVSWTLSFTAPTSKEAHDVLSGYINYVSSLVVRDLMEDIRNKLEVKTNVEKEILALD
                     EIKIRNQLNADIRRLNYSLEVANAAGIKKPVYSNGQIMKDDPDFPVALGSDGIATKLNI
                     KKSIKDVSELSGELRNRQYVVNQLVVAKVGDVDFMPFQYQLSPTLPVRKDGPSNAIIVI
                     LSSVIGGMLACGYILLRHAMEARKMSVIE"
                     /name="wzz(fepE)"
     gene            complement(1439..1573)
                     /locus_tag="QDW59_RS00015"
     CDS             complement(1439..1573)
                     /locus_tag="QDW59_RS00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005019281.1"
                     /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_071606675.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAATGKQDVREMY"
                     /name="replication initiation protein"
     gene            complement(2219..2413)
                     /locus_tag="QDW59_RS00010"
                     /old_locus_tag="QDW59_25285"
     CDS             complement(2219..2413)
                     /locus_tag="QDW59_RS00010"
                     /old_locus_tag="QDW59_25285"
                     /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_001041630.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAENETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2053..2139
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.455"
                     /coverage="100.0"
                     /evalue="1.14e-31"
     Typing          2450..2548
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(1502..2028)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.956"
                     /coverage="98.0"
                     /evalue="2.2599999999999997e-176"
ORIGIN
        1 atgtctgctg aatggttttt aggttttttc ctaacatatg atagaataaa aaaaccatat
       61 gttaatatat tgtgtttttt ttcaatgaaa atctcaaagg tatctgacga acatttttct
      121 aattacaaca tgttgccgaa tggtaatgaa ggaattgatc tttttggctt gattagcgtt
      181 ttatgggcag caaaaataaa aattgttggg gtgattctat tttttgcttg tattggcttt
      241 cttgtttctt ttgttttgcc acaaaaatgg actagttctg ctgtggttac tcctgctgag
      301 tctgttcaat ggagtgaatt aaataaggag ctttctaagc ttcatgttct gggagtggat
      361 tttgatatca atcgtgataa cgcatttgat ctgtttatta agaaatttca gtccgttaat
      421 tcgttgaatg agtatatgag atcatctcct tatgttatgg agatgattaa aaagaataac
      481 attagcgctc tcgaactgca tcgtgcaatt gttgagttga gtaaaaatat gaagtcggtt
      541 gatgataata ccagtaagaa aaacgacaag tcatcattgt atgtatcatg gactctgagt
      601 tttactgctc caacaagtaa agaagctcac gatgtgttgt ctgggtatat taattatgtt
      661 tcttcccttg ttgtaaggga tttgatggaa gatataagaa ataaactaga agttaaaact
      721 aatgttgaaa aagaaattct tgcactggat gagataaaaa ttagaaacca gctgaatgca
      781 gatattcgac gcctcaatta ttcactggag gttgctaatg cggctggaat aaaaaaacct
      841 gtatacagca atggtcagat tatgaaggat gacccagatt ttcctgtggc tctcggttct
      901 gatggtatag caactaaatt gaacatcaaa aaatcaatca aggatgtttc ggaattgagt
      961 ggggagttgc gaaatcgtca atatgttgtg aatcaattgg ttgtggcgaa agtgggggat
     1021 gttgatttta tgccgtttca gtatcaattg agcccaacgt taccggtcag aaaggatggg
     1081 ccaagtaatg ccataattgt aattctttct tctgtcattg gagggatgct tgcatgtggc
     1141 tatatacttt tacgtcatgc catggaggcc agaaagatga gtgtgattga gtaaaagttg
     1201 tgctgatgca tcattttata agcagctttt ataaaaagtt caaaggatct tcttgagatc
     1261 attcccttac agccgtagtc ttctactcta gaaaacgaaa aaaccacctg gggaggtggt
     1321 ttttcgaagg ttcagtaagt tggggaactt ctgaaccgtg gtaacagtct tgtgcgagac
     1381 atgtcaccaa atctgtcctt ctagtgtagc ctcagtaagg ctgccacttc aagaactctc
     1441 aatacatctc tcgcacatcc tgtttaccag tggccgctgc caatggcgtt aagtcgtgtc
     1501 ttaccgggtt ggactcaaga cgatagttac cggataaggc gcagcggtcg ggctgaacgg
     1561 ggggttcgtg cacacagccc agcttggagc gaactgccta cccggaactg agtgtcaggc
     1621 gtggaatgag acgaacgcgg ccataacagc ggaatgacac cggtaaaccg aaaggcagga
     1681 acaggagagc gcacgaggga gccaccaggg ggaaacgcct ggtatcttta agtcctgtcg
     1741 ggtttcgcca cctctgactt gagcgtcgat ttttgtgatg cttgtcaggg gggcggagcc
     1801 tatggaaaaa cgccaccggc gcggcctttt ttcggggcct cttttttgct cacatgtttt
     1861 ttccggtgtt atcccctgat tctgtggata accgtatatc cgtctttgcg tgagcagaca
     1921 ccgctcgccg cagccgaacg accgagcgca gcgagtcagt gagcgaggaa gcggaagagc
     1981 gccggaagct gcattttctc cttacgtatc tgtgcagcat ttcacacctc atatgtcgct
     2041 gttctctcac catctgctct ggcgccgcat aattaagcta gtatacactc cgctatcgct
     2101 acgtgactgg gtcatggctg cgccccgaca cccgctaaaa ccccctgacg cgccctgacg
     2161 ggcttgtctg ctgacgaaaa cgcccacggg aaagccgtga ccgcctccgt cagcttcgtt
     2221 atgttcctgt ttcattttcg gcctcaaagc gaatctggat gctgttctgg agttcttctg
     2281 cgagttcgtg cagtcgttcg cacatggccg cctgttcgtc ggcatccaga gcatccagtt
     2341 tttcaagcag tgtcaggctc tggcttttga taaatcgcgc catattcagc gcagtttgtt
     2401 gttgtttgtt caccttccgt tgttctccgt cagttccggg tgtcgggggg accctgagca
     2461 ggtggtaatt gtaagacgtt gcgggcgacg gtattacaat tgcacatcct gtcctgtttc
     2521 tttaggacgt atcatggcac agcatatcaa ctgataaata atccctgtgc agtgcagccg
     2581 ctgttgcata aaatttcgct ctgcgtcgag tgtttcttaa tcaataattc cgctgatact
     2641 ccggaaaaac gcgagtctgt tctcatgcct gaaatgctca caccccacgc aaaaacaatt
     2701 ttttgctgat ttttctttat aaatagagag ttatgacaaa ttagttcttc ttgctctctt
     2761 tgtgatattt aaaaaagcgg tgtcggcgcg gtgtgttttt ttacaggacg cccctggggg
     2821 cgctgctagg ggtgtctgtt cagatatgta gcaatgagtc agggattcac gaactgaaaa
     2881 tgtccgaaaa tgtgtctcat gggcactgta tgcgcccaaa ccgatcgtca ttcactttca
     2941 tgcatagcta tgcagtgagc tgaaagcgat cctgacgcat ttttccggtt taccccgggg
     3001 aaaacatatc tttttgcggt gtttgcgact gaatcgcgtt cagcgcgttt tagcggtgcg
     3061 cgtaataaaa tgttatgtta a
//
