LOCUS       NZ_CP122725             4778 bp    DNA     circular CON 08-JUN-2024
DEFINITION  Escherichia coli strain ETEC1747 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP122725
VERSION     NZ_CP122725.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549624
            Assembly: GCF_030013475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4778)
  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 4778)
  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                   :: 294x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030013475.1-RS_2024_06_08
            Annotation Date                   :: 06/08/2024 05:09:47
            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)                     :: 5,492
            CDSs (total)                      :: 5,368
            Genes (coding)                    :: 5,074
            CDSs (with protein)               :: 5,074
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 294
            CDSs (without protein)            :: 294
            Pseudo Genes (ambiguous residues) :: 0 of 294
            Pseudo Genes (frameshifted)       :: 139 of 294
            Pseudo Genes (incomplete)         :: 157 of 294
            Pseudo Genes (internal stop)      :: 46 of 294
            Pseudo Genes (multiple problems)  :: 42 of 294
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122725.1.
            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..4778
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1747"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            1..>303
                     /locus_tag="QDW91_RS27535"
                     /pseudo=""
     CDS             1..>303
                     /locus_tag="QDW91_RS27535"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="MobC family plasmid mobilization relaxosome
                     protein"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            310..>960
                     /locus_tag="QDW91_RS27325"
                     /old_locus_tag="QDW91_27325"
                     /pseudo=""
     CDS             310..>960
                     /locus_tag="QDW91_RS27325"
                     /old_locus_tag="QDW91_27325"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            998..1483
                     /locus_tag="QDW91_RS27330"
                     /old_locus_tag="QDW91_27330"
     CDS             998..1483
                     /locus_tag="QDW91_RS27330"
                     /old_locus_tag="QDW91_27330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000096578.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            1487..1699
                     /locus_tag="QDW91_RS27335"
                     /old_locus_tag="QDW91_27335"
     CDS             1487..1699
                     /locus_tag="QDW91_RS27335"
                     /old_locus_tag="QDW91_27335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2468..2869)
                     /locus_tag="QDW91_RS27340"
                     /old_locus_tag="QDW91_27340"
     CDS             complement(2468..2869)
                     /locus_tag="QDW91_RS27340"
                     /old_locus_tag="QDW91_27340"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505260.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001505260.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKELLDLLYTLEIRPGS
                     SAKKNLTEFTISEISDIGMYRRVAKGNHA"
                     /name="hypothetical protein"
     gene            complement(2866..3750)
                     /locus_tag="QDW91_RS27345"
                     /old_locus_tag="QDW91_27345"
     CDS             complement(2866..3750)
                     /locus_tag="QDW91_RS27345"
                     /old_locus_tag="QDW91_27345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505259.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WP_001505259.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAERVSVYDVQISNAYKQASQ
                     FKNLTIEFMRTCR"
                     /name="ParA family protein"
     gene            complement(3998..4129)
                     /locus_tag="QDW91_RS27350"
                     /old_locus_tag="QDW91_27350"
     CDS             complement(3998..4129)
                     /locus_tag="QDW91_RS27350"
                     /old_locus_tag="QDW91_27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001505258.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="hypothetical protein"
     Typing          4492..4665
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.857"
                     /coverage="100.0"
                     /evalue="2.61e-71"
     Typing          complement(3982..4568)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.723"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2..303
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.137"
                     /coverage="95.0"
                     /evalue="3.27e-57"
     Typing          311..1815
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.024"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgctcacga tgtgggtgac ggaagacgaa caccggcggc tgctcgagcg gtgcgacggc
       61 aggcagctgg cggcgtggat gcgtcagacc tgcctcgatg agaagccggc gcgtgccggc
      121 agactgccat cgatatcccc ggcgctgctg cgccagcttg caggtatggg taacaacctg
      181 aaccagatcg cccggaaagt gaatgccggt ggtgccggtc atgaccgggt gcagattgtg
      241 gccgccctga tggcaatcga cgcgggactg gagcggctgc ggcatgcggt gctggaaaaa
      301 gggggggtga tgatcgttaa atttcatccc cggggacgcg gtggtggtgc cggtccggtg
      361 gattacctgc tgggaaaaga ccggcagcgc gagggggcga ccgtgctgca gggaaaaccg
      421 gaggaagtcc gggagcttat cgatgcctcg ccgtatgcga aaaagtacac ctccggcgta
      481 ctgtcgttcg cggaggctga actgccgccc gggcagcggg agcagatcat ggccagcttt
      541 gagcgggttc tgatgcccgg gctcgataaa gaccagtaca gcattctgtg ggtggagcac
      601 accgacaagg ggcggctgga actgaatttc ctgatcccca acactgaact gctgaccggg
      661 aaacgcctgc agccgtatta cgatcgagcc gatcggccgc gcatcgatgc ctggcagacc
      721 gtggtgaacg gcagactggg gctgcatgat ccaaacgccc cggagaaccg gcggctactg
      781 gtcacgccgt ccgcactgcc gaaaacgaag ctggaagccg ctcaggcgat tacacgaggg
      841 ttgctggcct tagcctcatc cggggagctc aaaacgcgcg aggacgtcac aggggcgctc
      901 acagcggcag gttttgaggt ggtccgcacc acaaaaaaca gtatcagcat tgccgacccg
      961 gacggggggc gaaacatccg actgaaggga gccatttatg agcagtcttt tagcgctggc
     1021 gaaggacttg gagcagcaat cgaaagcgca gcagcagagt accggcgaga tgctgaaagc
     1081 cgcattcagc gagcacgaga agtctgtaaa agcggaactg agcgcaagcg cgaagagaat
     1141 cagcgacgcc atcagcgccc acgagcaggg tatgaccgcg gcgatgcagt cgaaccgcct
     1201 gagcgtgctg cgtatggtcg gccggacgtg gctgaccatc actctggtct cggtactact
     1261 gatcgccacg agcgggagca ttctgtggtg gcaggggcag cagatcaccg gaaattacca
     1321 gactatccgg gcgcaggagc ggacgcaggc catgctgtcg gagaagaacc acggcgtgca
     1381 gctgtcgctc tgcggggaga agaaactgtc ctgcgtcaaa gtgaacccga aagcgggagc
     1441 ttacggggag gaagggaact ggatggtact ggagaggaaa tagctcatga cggaactgga
     1501 aaaacagttg ctgaccgcat tagagcagct acatcaggac tactcgcaaa ggctggacga
     1561 gtgggagagc gccttcgcgg aatggcagaa gatgtctggt cttatgcaac gggagaacgc
     1621 ggcgctgaac gagcgcgtga cgcgcttgag tcagcaggtg gcgaacttga gcaggcaatt
     1681 acagcgtttg agccagtagt gcagcggcat gaaatggcgg tggccgccga acgggcatac
     1741 gagcagcgac agcacgaaaa agagctggcg gaagcccgtt cccgtcagcg gagctataac
     1801 ggtccgacgc tgggctgaca ggcttcacca gtgacaaacc ccacgaagaa gggctcataa
     1861 atttcccgct aaatacggtc gtgatgaaaa catcacggcg tatacaacgg agggattatg
     1921 agactgttta acgtgattga gacggtgctg aactgcctgt acatggcgct ggagatctgg
     1981 gactggctgg agaagcattt tcctgttttt aaggcgttca tccggattct ggcctgaaat
     2041 cagaccgtat gcatctggct gcatgaccat gcagccgggt aaaatttatc tgtcacggac
     2101 ggggcggtgt atcgggtggt ttgttgccgg ttttacctga ctgccgcccc gtttgtgacg
     2161 aacctgtccg gagcggtgcg ggcaacggat gttatggtaa ataggttcgt ccggtatgct
     2221 caatgaagat aagccagttt ttaactgatt cttttttcga tcgtttgaaa caagaatagt
     2281 atttggcaat agcggttgtc tttatctagc caagcacaat tagctagatc tatgtaaccg
     2341 ttattttgag acgatccata tccgatgacc gtcatcgctt ttgattctga ctttaagtaa
     2401 actatatcgc ctatattaaa tggcattttt ttatcctata aaaagccacc tcacaggtgg
     2461 cttttattta tgcatgattc cctttcgcta cgcgacgata catgccaata tcacttatct
     2521 cacttattgt gaactcggtt agatttttct ttgctgagct cccaggtctg atttcaagag
     2581 tatataacaa atcaagaagt tcttttctgc tatatttctg atcgtggaaa tatgaataca
     2641 gatcttcttt tgacatttcc atcagttctt caactgattt atgtgtcatt ctccttgttg
     2701 ctaaaataat ctcctcaacg agatcggagc gttttaattt gcttgggttc tttggaagta
     2761 aattaccaaa ggattcaatt agctcggcat tagtcatttc acttttatcc aagccagctt
     2821 tagctccctc aacgccaagc caagatatca gtttttggat atctatcatc gacaagtcct
     2881 cataaactca atcgtcaagt tcttaaactg tgacgcttgt ttgtaagcgt tacttatctg
     2941 tacatcatac actgaaacgc gctctgctgc agctactctt agcccatcac cttccgttat
     3001 gtagtgcttg aagatgtcac ctgcttgccg aagcctgttg tattcatatt gctctgtttg
     3061 cttcagttct tctgcatatt ctctggccat cattcccatt gctccggcga aaactgtgtc
     3121 cttatatgaa tcgccgactt gcagtgcctt tcttagcatt tcaatatctt catttacatt
     3181 atttatctca cctatgaccg tggccacacc aatagatgat tgcctgtcta gttttaccgg
     3241 tgatacacaa taatctgatg cgtagattat agagcgcatg acatcagaaa cttcggggtg
     3301 tgaatcaatc aatatgtagt cataattatc tgcaataggt gataatacag cgcttatggt
     3361 ttttaaatgc tgtaaaagaa tggcattgtt cgatcttata ttgtttgtac taggtagctt
     3421 atcagttgaa acggttgata agcgagggtc ggctggaatg acatcgatac cactattaaa
     3481 tttaattatg tctatgtcag tcgtttgttg tgccgcgcta tataattgct gatacttgtt
     3541 aaataacgtt gttccttgcg gtgcttgatt tccaaagttt tcgatcagtt tagggaaaaa
     3601 tcttccagtt atacctccgc gttgataatc tgcatctata actaaaacac gtttttcatg
     3661 aaaacgacta agtccttcgg caatgtgata acaggacgtt gttttaccaa ccccaccttt
     3721 ctcactaata aacccaactg tcacagccat ttttattcct tacaaatctc ttttttttgg
     3781 tagagggaac agcgtcaacg ctttccttga cgttcagtat aacgtcagcg tactcttagc
     3841 catcaaacga aaaaaccgac tggggagtcg gttttttcga gggttcagta agttggggaa
     3901 cttctgaacc gtggtaacag ggtgtacaag accgctgaaa ccaaattctg ttattccagt
     3961 ttagcctctc taaggctgat acttcaagaa ctctcactca gtaaatcttg tacacccctt
     4021 tactcatggc tgctgccagt ggcgctttgt cgtgtctttc cgggttggac tcaagtcgat
     4081 agttaccgga acaggcgcag cagtcggact gaacgggggg ttcgtgcata cagtccagct
     4141 tggagcgaac tgcctacccg gaactgagtg tcaggcgtgg aatgagataa acgcggccat
     4201 aacagcggaa tgacaccggt aaaccgaaag gcaggaacag gagagcgcac gagggagcca
     4261 ccagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacca ctgatttgag
     4321 cgtcagattt cgtgatgctt gtcagggggg cggagcctat ggaaaaacgg cttcgccgcg
     4381 accctatcgc ttccctgtta agtatcttcc tggcatcttc caggaaatct ccgccccgtt
     4441 cgtaagccat ttccgctcgc cgcagtcgaa cgaccgagcg tagcgagtca gtgagcgagg
     4501 aagcggaata tatcctgtat cacatattct gctgacgctc cggtgccgcc ttttttctcc
     4561 tgccacatga agcactttcc tgatacccgc actcatgcca acatagtaag ccagtataca
     4621 ctccgctagc gctacgtgac tggttcaggg ctgcgccccg aaacccgcta aaagctactg
     4681 acgcgcctgc ggcttgtcca acaccgtgcc gcccgggaaa aatttcccgc ccgtcccggt
     4741 gttatcagga ggttactctg gcagacaaac gcaacaag
//
