LOCUS       CP122796                5641 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1735 plasmid unnamed4, complete
            sequence.
ACCESSION   CP122796
VERSION     CP122796.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549612
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5641)
  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 5641)
  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                   :: 162x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:20:41
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,000
            CDSs (total)                      :: 4,883
            Genes (coding)                    :: 3,993
            CDSs (with protein)               :: 3,993
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 890
            CDSs (without protein)            :: 890
            Pseudo Genes (ambiguous residues) :: 0 of 890
            Pseudo Genes (frameshifted)       :: 684 of 890
            Pseudo Genes (incomplete)         :: 222 of 890
            Pseudo Genes (internal stop)      :: 61 of 890
            Pseudo Genes (multiple problems)  :: 72 of 890
            Pseudo Genes (short protein)      :: 3 of 890
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..5641
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1735"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..2969
                     /locus_tag="QDX85_23145"
                     /pseudo=""
     CDS             1..2969
                     /locus_tag="QDX85_23145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001138014.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology.
                     GO_function: GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="Tn3-like element TnAs1 family transposase"
                     /name="Tn3-like element TnAs1 family transposase"
     gene            complement(3189..4767)
                     /locus_tag="QDX85_23150"
                     /pseudo=""
     CDS             complement(3189..4767)
                     /locus_tag="QDX85_23150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001513488.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="PAS domain-containing methyl-accepting chemotaxis
                     protein"
                     /name="PAS domain-containing methyl-accepting chemotaxis
                     protein"
     gene            5093..5638
                     /locus_tag="QDX85_23155"
     CDS             5093..5638
                     /locus_tag="QDX85_23155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005220837.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0000150 - DNA strand exchange activity [Evidence IEA];
                     GO_function: GO:0003677 - DNA binding [Evidence IEA];
                     GO_process: GO:0006310 - DNA recombination [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WHG62800.1"
                     /translation="MGYVRVSSFDQNPERQLEQTQVSKVFTDKASGKDTQRPQLEALLS
                     FVREGDTVVVHSMDRLARNLDDLRRLVQKLTQRGVRIEFLKEGLVFTGEDSPMANLMLS
                     VMGAFAEFERALIRERQREGIALAKQRGAYRGRKKALSDEQAATLRQRATAGEPKAQLA
                     REFNISRETLYQYLRTDD"
                     /name="recombinase family protein"
ORIGIN
        1 atgccgcgtc gcttgatcct ctcggccacg gagcgggaca ccctgcttgc gctgccggaa
       61 agccaggatg acctgatccg ctactacacc ttcaacgact ccgacctgtc gctgatccgc
      121 cagcgacgcg gcgacgccaa ccgcctcggc ttcgccgtgc agctctgcct gctgcgctac
      181 cccggttacg cgctgggaac cgacagcgag ctgcccgagc cggtcatcct gtgggtggcg
      241 aagcaagtcc aggccgagcc ggcgagctgg gcaaagtacg gcgagcgcga cgtgacccgt
      301 cgcgagcatg cccaggaact gcgcacctac ctgcaactgg ccccgttcgg cctgtccgac
      361 ttccgcgccc tggtgcgcga gctaaccgag ctggcccagc agaccgacaa aggcttgctg
      421 ctggccggtc aggccctgga gagcctacgg cagaaacgac gcatcctgcc ggcgctgagc
      481 gtgattgacc gggcctgctc ggaagccatt gcgcgagcca atcggcgggt ctaccgcgcc
      541 ctggtcgaac cactcacgga ctcgcatcgg gccaagctgg acgagctgtt gaagctcaag
      601 gccggcagca gcatcacctg gttgacctgg ctgcgccagg cgccgctgaa acccaactct
      661 cggcacatgc tggaacacat cgagcggctg aagacatttc agttggtgga cttgcccgaa
      721 ggcctgggcc ggcacatcca ccagaaccgc ctgctcaagc tggcccgcga gggtgggcag
      781 atgacgccca aagacctcgg taagttcgag ccgcagcgcc gctacgcgac cctggccgcc
      841 gtggtgctgg agagcaccgc gaccgtgatc gatgagctgg tcgatctgca tgaccgcatc
      901 ctggtcaggc tgttcagcgg cgcgaagcac aagcatcagc agcagttcca gaagcagggc
      961 aaggcgatca acgacaaggt gcgcctgtac tccaggatcg gccaggcgct gctggaagcg
     1021 aaggaaagcg gcagcgaccc ctatgccgcc atcgaggcgg tgattccctg ggacgagttc
     1081 accgagagcg tcagcgaggc cgagctgctg gcccggccgg aaggcttcga ccacctgcac
     1141 ctggtcggcg agaacttcgc caccctgcgc cgttacacgc cggccttgct ggaggtgctg
     1201 gaactgcgcg ccgcgccggc cgcgcaaggc gtgctggcag ccgtgcagac cctgcgtgag
     1261 atgaacgccg acaacctgcg caaggcgtcg gccgatgcac ccacggcctt catcaagccg
     1321 cgctggaagc cgctggtgat caccccggaa ggcctcgacc ggaaattcta cgaaatctgc
     1381 gccctgtccg agctgaagaa cgccctgcgc tccggcgaca tctgggtcaa gggctcgcgg
     1441 cagttccgcg acttcgacga ctacctgctg ccggccgaga agttcgccgc actcaagcgc
     1501 gagcaggccc tgcccctggc gatcaacccg aacagcgacc agtacctgga agagcgtttg
     1561 cagctgctgg acgagcagtt ggccaccgtc acccgcctgg ccaaggacaa cgagctgccc
     1621 gatgccatcc tcaccgagtc agggctgaaa atcaccccgc tggatgcggc ggtcgccgga
     1681 tcgggcgcag gcgctgatcg accaaaccag ccagttactg ccgcgcatca agatcaccga
     1741 actgctgatg gacgtggacg actggacggg cttcagccgc cacttcaccc acttgaagga
     1801 cggggccgag gccaaagaca ggacgttgct gctgtccgca atcctcggtg atgcgatcaa
     1861 cctcgggctg accaagatgg ccgagtcgag ccccggcctg acctacgcca agctgtcctg
     1921 gctgcaagcc tggcacatcc gcgacgaaac ctattcggcg gccttggccg agctggtcaa
     1981 ccaccagtat cgccacgcct ttgccgccca ctggggcgac ggcacgacct catcctccga
     2041 tggccagcgc ttccgcgcgg gtggccgggg cgagagcacc gggcacgtca acccgaagta
     2101 cggtagcgag ccgggacggc tgttctatac ccatatctcc gaccagtacg cgccgttcag
     2161 cacccgcgtg gtgaatgtcg gcgtccgcga ttccacctat gtgctcgacg gcctgctgta
     2221 ccacgagtcc gacctgcgga tcgaggagca ctacaccgac acggccggct tcaccgatca
     2281 cgtctttgcc ctgatgcacc tgctaggctt ccgcttcgcg ccgcgcatcc gcgacctcgg
     2341 cgaaaccaag ctgtacgtgc cgcagggcgt gcaagcctac ccgacgttgc gcccgctgat
     2401 cggcggcacc ctgaacatca agcacgtgcg tgcccactgg gacgacatcc tgcgcctggc
     2461 cagctcgatc aagcagggcg accgtcaccg cctcgctgat gctgcgcaag ctcggcagct
     2521 acccgcgcca gaacggactg gccgtggccc tgcgcgagct gggccggatc gagcgcacgc
     2581 tgttcatcct ggactggctg caaagtgttg aactgcgccg ccgcgtgcat gccggcctga
     2641 acaaaggtga ggcgcgcaac tcgctggcca gggcggtgtt cttcaaccgc cttggggaaa
     2701 tcagggatcg gagcttcgag cagcagcgct accgggccag cggcctcaac ctggtgacgg
     2761 cggctatcgt gctgtggaac acggtgtacc tggaacgcgc cacccagggg ttggtcgagg
     2821 ccggcaagcc ggtggacggc gagctgctgc aattcctgtc gccgctgggc tgggagcaca
     2881 tcaacctaac cggcgattac gtctggcggc agagccgcag actggaagac gggaagtttc
     2941 ggcccttacg gatgcccgga aaaccttagc gtacgatttt ttccgaattc tgcgggctcc
     3001 cggggaaccg cagaattcgg aaaaatcgta cgctaagcta acggtgttct cgtgacagct
     3061 ctttgactag gctttctaag gccattctga tagccctgac ttcctgaaaa gccatggcta
     3121 aaatttgtgc ggctaaaagg gataaccgat ggtaaagtaa gttatccctg tcgagatact
     3181 gaaaagcgtt atcctcgttt ttcccaaaac tgttttgcca gttcgctcag agcgctagtt
     3241 aactgagcga cagatttcgc actttgcaaa ttattctgcc cggtctgtac attggtatca
     3301 gcagcatcgc gtatattgat aatactgcgg tttatgtctt cacttactgc tccctgctgc
     3361 tcgaccgcag tcgctatttg cgcgttcatg tcggtaattt cgttaacgcg ttggccaatt
     3421 ccatcaagag ctgtagctgc ttcctctgcg tgagctacac tcgtgtgcgc ttgccgacta
     3481 ctttgctcca tgactgtaac agcggattgc gctcgctctt gtagagcgct gatcatgctt
     3541 tgaatatccg ttgtcgattg ctgtgtgcga gcagcaagac tgcgaacctc atcggcgaca
     3601 acagcaaaac cacgcccctg ctcaccagca cgcgcggcct caattgctgc gttgagtgcc
     3661 aacaaattcg tttgctcggc gatccctcgt ataacgtcaa gaacttttga tatctcgtta
     3721 ctttgacctt caagctcatg aataacctga gtggcttgcc taatttcacc ttcaagggca
     3781 gtgattgact ggcttgtgtg ggctaccaga cgctggccag atgccgtctc agtgtctgct
     3841 cttccggccg catctgcagc atgctgtgca ttgctcgcaa cctcttgaat gcttgccacc
     3901 atttggttta ctgccgttgc tatttgatct gtctctgcct gctgctcaac tgtaagtaca
     3961 ttgcttgact caatatcctt tagtaggcct cgggtgtgtt cgctaagccg atttgatgca
     4021 tcacctatgc gacctactat ggctgcctgt ttcagcttgc atcattcgta aagcaaactc
     4081 tatttggcca aactcatcgg tgcgcccagt gtagagggat tgacttaatg ggttattgga
     4141 aatattcctg gctctttcaa ccagtcttcc aagaggagag agaatagcca aaacactaac
     4201 agagcttaag cttcctgaca ttaaagtggc taacaataag ctgcttattg atgtatcagt
     4261 aagcatgccg gcagccattg cgcttgatat aatactaccc catatgagca agagtatttt
     4321 cacggaaaag ctagcagcca atttcggcct cgcggccttc ccgcttctca attgagcata
     4381 taatttttcc gcagccaaaa cctgctcagg ttcaggcttg gtccttacag actggtattc
     4441 aacaatcgaa ccattcttag ctattggcgt tacataagca cttacccaat agtggtcgcc
     4501 atttttacag cgatttttta ctagccccat ccatgagcgg ccagatttta atgtactcca
     4561 catatgctca aatgcagcag gcggcatatc tgggtgtctt acgatgttgt gaggctggcc
     4621 taatagttct tcctcagtga aaccactgat tttaatgaag tcaggattaa cgtacgtgat
     4681 atggctttga ggggaggtag tcgaaagaat attggcatct tttgggagtt ctaagtttcg
     4741 acccgtcact ggtaaattct ggcgcataag aacctcaagg gttggctgtt ttattttatt
     4801 gttttcggca ttaagcccaa tttcttgagc gttacgataa agctagcatg gaaacgatag
     4861 gtgcaagcaa gttaagggtt gcatcgcgca tgtcaatcta ggctataccc taacttgatg
     4921 tcaggcaggg ccgcgccgct tcgtcagaat agagtctgct ttcccatttt ttgacacatg
     4981 cccgcgaagg ttatagattt cagcctgaca gaaatgggct ttgaggcaca acggaacaga
     5041 aagtgcactt aagccgcctt caaccaagga gacatcgtgc aggagcgacc gcatcggcta
     5101 cgtccgggtc agcagctttg accagaaccc ggaacgccag ctggaacaaa cccaggtgag
     5161 caaggtgttc accgacaagg catcgggcaa ggacacccag cgcccccagc tcgaagcgct
     5221 gctgagcttc gtccgcgaag gcgatacagt ggtggtgcac agcatggatc ggctggcccg
     5281 caacctcgat gacctgcgtc gcttggtaca gaagctgact cagcgcggcg tgcgcatcga
     5341 gttcctgaag gagggcctgg tgttcactgg cgaggactcg ccgatggcca acctgatgct
     5401 gtcggtgatg ggggccttcg ctgagttcga gcgcgccctg atccgcgagc ggcagcgtga
     5461 gggcatcgcc ttggccaagc agcgtggcgc gtaccggggc cgcaagaaag ccctgtccga
     5521 tgagcaggct gctaccctgc ggcagcgagc gacggccggc gagcccaagg cgcagcttgc
     5581 ccgcgagttc aacatcagcc gggaaaccct ctaccagtac ctccgcacgg acgactgaca
     5641 c
//
