LOCUS       NZ_CP122710             3088 bp    DNA     circular CON 19-JUN-2024
DEFINITION  Escherichia coli strain ETEC4061 plasmid unnamed1, complete
            sequence.
ACCESSION   NZ_CP122710
VERSION     NZ_CP122710.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549638
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3088)
  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 3088)
  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              :: 315x
            Sequencing Technology        :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider          :: NCBI RefSeq
            Annotation Name              :: GCF_030166045.1-RS_2024_06_19
            Annotation Date              :: 06/19/2024 11:40:40
            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
            CP122710.1.
            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..3088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC4061"
                     /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="QDX28_RS00005"
                     /old_locus_tag="QDX28_27580"
     CDS             85..1194
                     /gene="wzz(fepE)"
                     /locus_tag="QDX28_RS00005"
                     /old_locus_tag="QDX28_27580"
                     /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="QDX28_RS00015"
     CDS             complement(1439..1573)
                     /locus_tag="QDX28_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(2226..2420)
                     /locus_tag="QDX28_RS00010"
                     /old_locus_tag="QDX28_27585"
     CDS             complement(2226..2420)
                     /locus_tag="QDX28_RS00010"
                     /old_locus_tag="QDX28_27585"
                     /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          2058..2142
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="3.09e-37"
     Typing          2457..2555
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(1502..2030)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.796"
                     /coverage="98.0"
                     /evalue="2.93e-175"
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 tagtcctgtc
     1741 gggtttcgcc acctctgact tgagcgtcga tttttgtgat gcttgtcagg ggggcggagc
     1801 ctatggaaaa acgccatcgg cgcggccttt tttcggggcc tcttgttttg ctcacatgtt
     1861 ttttccggtg ttatcccctg attctgtgga taaccgtata tccgcctttg cgtgagctga
     1921 caccgctcgc cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg aagcggaaga
     1981 gcgccggaag ctgcattttc tccttacgca tctgtgcagc atttcacacc tgccacatgt
     2041 cgctcttctc tcaccatctg cactgatgcc gcatagttaa gccagtatac actccgctat
     2101 cgctacgtga ctgggtcatg gctgcgcccc gacacccgct aaggaacccc ctgacgcgcc
     2161 ctgacgggct tgtctgctga cgaaaaccgc ccacgggaaa gccgtgaccg cctccgtcag
     2221 cttcgttatg ttcctgtttc attttcggcc tcaaagcgaa tctggatgct gttctggagt
     2281 tcttctgcga gttcgtgcag tcgttcgcac atggccgcct gttcgtcggc atccagagca
     2341 tccagttttt caagcagtgt caggctctgg cttttgataa atcgcgccat attcagcgca
     2401 gtttgttgtt gtttgttcac cttccgttgt tctccgtcag ttccgggtgt cggggggacc
     2461 ctgagcaggt ggtaattgta agacgttgcg ggcgacggta ttacaattgc acatcctgtc
     2521 ctgtttcttt aggacgtatc atggcacagc atatcaactg ataaataatc cctgtgcagt
     2581 gcagccgctg ttgcataaaa tttcgctctg cgtcgagtgt ttcttaatca ataattccgc
     2641 tgatactccg gaaaaacgcg agtctgttct catgcctgaa atgctcacac cccacgcaaa
     2701 aacaattttt tgctgatttt tctttataaa tagagagtta tgacaaatta gttcttcttg
     2761 ctctctttgt gatatttaaa aaagcggtgt cggcgcggtg tgttttttta caggacgccc
     2821 ctgggggcgc tgctaggggt gtctgttcag atatgtagca atgagtcagg gattcacgaa
     2881 ctgaaaatgt ccgaaaatgt gtctcatggg cactgtatgc gcccaaaccg atcgtcattc
     2941 actttcatgc atagctatgc agtgagctga aagcgatcct gacgcatttt tccggtttac
     3001 cccggggaaa acatatcttt ttgcggtgtt tgcgactgaa tcgcgttcag cgcgttttag
     3061 cggtgcgcgt aataaaatgt tatgttaa
//
