LOCUS       NZ_CP122729             4091 bp    DNA     circular CON 08-JUN-2024
DEFINITION  Escherichia coli strain ETEC1746 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP122729
VERSION     NZ_CP122729.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32549623
            Assembly: GCF_030013495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4091)
  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 4091)
  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                   :: 389x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030013495.1-RS_2024_06_08
            Annotation Date                   :: 06/08/2024 05:11:47
            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)                     :: 4,961
            CDSs (total)                      :: 4,845
            Genes (coding)                    :: 4,596
            CDSs (with protein)               :: 4,596
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 249
            CDSs (without protein)            :: 249
            Pseudo Genes (ambiguous residues) :: 0 of 249
            Pseudo Genes (frameshifted)       :: 103 of 249
            Pseudo Genes (incomplete)         :: 144 of 249
            Pseudo Genes (internal stop)      :: 38 of 249
            Pseudo Genes (multiple problems)  :: 32 of 249
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP122729.1.
            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..4091
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1746"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="Belgium"
                     /collection_date="2021"
                     /collected_by="IMM_DI04"
     gene            43..2190
                     /gene="mobQ"
                     /locus_tag="QDW99_RS24090"
                     /old_locus_tag="QDW99_24090"
     CDS             43..2190
                     /gene="mobQ"
                     /locus_tag="QDW99_RS24090"
                     /old_locus_tag="QDW99_24090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_061089184.1"
                     /translation="MAIYHLSMKILSRSKGYSAVASAAYRAGEKILDERTGVIHDYTRK
                     NGVASAVILTPANAPAWCANRAELWNAVEKAERRKNSQLAREFELAIPRELAQDAARET
                     VLNFVRENFVSRGMIADVAFHNLGGSNPHAHIMLSMRAITPDGFGEKVREWNDWTHAET
                     WRGSWADHANRALANAGYQEEIDHRSYERQGVEKTPGIHLGKSACAMEKWGIETERGEQ
                     NRLINRLNLEIQVSRDELRNSELTEPARRMADLLNIELPDNATSYILHDIIEALPTDSN
                     AAWKLTSKAMSMMADMQATRRRWEDLNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWV
                     APEYGREQEKIQSLSQRMEKLRQHHWKVEKQDIPASQKAFETQWQQWGASGLADLREQL
                     RKREEELRRKEQEETERRRAEQLRRNDNAVMDSGVLKAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRSRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSMGGVVRLNGTLYPAFAVPTADNSQLVINALTDKGLRFA
                     GYGEAVNHDADSPARPAPELMQFHLKTWSEPLFAIVNTPEKQPDHLFRSLGFERTWDEW
                     QRDEYARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2439..3140)
                     /locus_tag="QDW99_RS24095"
                     /old_locus_tag="QDW99_24095"
     CDS             complement(2439..3140)
                     /locus_tag="QDW99_RS24095"
                     /old_locus_tag="QDW99_24095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_011666799.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGSDAESTEL
                     QKTMTVTAEEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCVDELNQKSDLAVTLETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3673..3963)
                     /locus_tag="QDW99_RS24100"
                     /old_locus_tag="QDW99_24100"
     CDS             complement(3673..3963)
                     /locus_tag="QDW99_RS24100"
                     /old_locus_tag="QDW99_24100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001514113.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_021533561.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVREP
                     GETQLRAWLLHLLKTEVTRQADVSRIQPLIDELNALPKPVPKEVSENDQQA"
                     /name="hypothetical protein"
     Typing          complement(44..398)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2441..3140)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.301"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..2187
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.177"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgcgccctg cggggctaaa agaaaacggc aacaacgaca cgatggcaat ttatcatctc
       61 agcatgaaga ttctttccag aagcaagggc tacagcgccg ttgcttctgc tgcctatcgt
      121 gccggagaaa aaatactgga tgagcgcacc ggagtgattc acgactacac ccgcaaaaac
      181 ggtgtagcca gcgcagtgat tctgacgcca gcaaacgccc cagcatggtg tgcgaaccgc
      241 gccgaactct ggaatgctgt tgaaaaagcc gagcggcgga aaaactcaca acttgcgcgg
      301 gagttcgaac tcgccatccc ccgtgaactg gcgcaggatg ccgcacggga aacagttctc
      361 aacttcgtaa gggaaaactt tgtcagtcgc ggcatgatcg ccgacgtggc ctttcacaat
      421 ctgggcgggt caaacccaca cgcgcacatc atgctatcca tgagggcaat cacgcctgac
      481 ggcttcgggg agaaagtccg tgagtggaat gactggactc acgccgaaac atggcgggga
      541 tcatgggcag accatgcgaa cagggcgctg gcgaacgccg gttatcagga agagatagac
      601 catcgttcat acgagcgaca gggggttgag aaaacgcctg gcattcacct cggaaagtcg
      661 gcctgtgcga tggaaaagtg gggcatcgaa acagaacgcg gcgaacagaa tcgcctgatt
      721 aacaggctta acctggaaat acaggtttcc cgcgacgaac tcaggaacag tgagctgaca
      781 gagcccgcac gccgtatggc tgaccttctg aatattgagc ttcctgacaa cgcaacttcg
      841 tacatactgc atgacatcat cgaagcgttg ccgacggaca gtaacgcagc atggaaactc
      901 accagtaaag ccatgtcgat gatggcagat atgcaggcga cgcgcagacg ctgggaagat
      961 ctgaacaccg aacgaaagga agcgatgagc catgctgcca gcctgaaaaa atcatcgccg
     1021 ttttcgtccg gtttttcccg tattcccctg atgcaatggg ttgcaccgga atacggccgc
     1081 gaacaggaaa aaatccagtc gttgagccag cgcatggaaa aattgcggca gcatcactgg
     1141 aaggttgaga aacaggacat tcccgcgagt caaaaagcat ttgaaacaca gtggcagcag
     1201 tggggtgcat ctggccttgc agatctccga gaacagttgc gtaaacgtga agaggaattg
     1261 cgccggaagg agcaggagga aacagaacgt cgtcgggcgg agcagctcag gagaaatgac
     1321 aatgccgtta tggattcagg ggtactgaaa gcagtcgtta cggggtatgg cgaggccccc
     1381 atgccaggta acggggaaat gacctgttac cttctgcttc acaaccggaa cggagaatat
     1441 acgctctggg ggaacgagct ggagaaatac cgctccagaa tttttgagag tgttgattta
     1501 atgcgtgaca ggagtggtta tatctgtgac cgaagcgaaa tcggtcaacg tccaccactg
     1561 caacgtgttt attcctctgc gacctttgag caactgctga cgcaggtttg ccagacatgg
     1621 ccgcaacata cccgtaatct ccgccagccg aaaacatggc cggagtcttt ctgtcttgga
     1681 gaagaccgcc agccagccat gccatcactg gcggcaagga aggtggattt tacgcaggga
     1741 cgtctgccac cgactctgat gccggtaatg agttctgtcg accgtgaaac ccgccagctt
     1801 cagcttttgc tggtcatggg tgtggatgac tctatgggcg gtgttgtccg gcttaatggt
     1861 acgctgtatc ccgcgtttgc cgtccccaca gccgacaaca gccagctggt aatcaatgca
     1921 ctgaccgaca aaggtttacg ctttgcaggc tatggtgaag cggtaaacca cgatgctgac
     1981 agtccggcac gtcctgcgcc ggaacttatg cagtttcatc tgaaaacctg gagcgaaccg
     2041 ctttttgcta tcgtcaacac gccagaaaaa cagccggatc atctgttccg ctcgctgggc
     2101 tttgagcgca cctgggatga atggcaacgt gatgaatatg cccgaacaca cgccaccgag
     2161 aggagacatg atcgcggttg gtcacagtga atgtgaccaa tattttgttt tgtttaacat
     2221 cgtgttatgt tcgtcgatgt tcatcgacag ggatgaatgc aagaagcaca cacataacac
     2281 aaatcaactt tatagttttc ccgcccccga aaaattgggg gttctttttt cactgtgcca
     2341 gagcgtttat gacgcaattt tttacttcac cagtaccttc gcatgccaaa cacaaaaaaa
     2401 acgcgtcaga gagcgtttta gaggccttaa aatcgattct agatcgtcat cttgatctgt
     2461 ttgtcttcct tgaagcgaaa atgcagggct acaaccgtgc gccccttctt gatcgtctca
     2521 agcgttacag ccaagtcgct tttttgattc agttcgtcaa cgcaaggtct taataattgc
     2581 tggttcagag acttatatgt ttgatattta tgctctatat caagcattga gcgaaaatca
     2641 tcgagggcga taatacgttc ccctgtgctg cggaattgct ggagaagttc gtatattctt
     2701 atgctgtaac ttcttgataa attggagatg ttcttaatta caactctagt aaattgcccc
     2761 ttcaactgtg tcagataagg catgaccgca tctgaaaaag tgatttgggc tttgccctca
     2821 cctttagcgt actgtgcccg atactggatc cagcggaact cctcgcgctt ctcatcgtcc
     2881 ttaaggatga tcgacctgtc ccacaaacga tcaattgctt cctgtagctg aacctcggca
     2941 tttttccgcc ccatatcagg gaatgagtcg aaatactctt cggcggtaac agtcatggtc
     3001 ttttgcaatt cagtggattc tgcatcagaa cccgacttca atcgaccaat gcaaagtaac
     3061 aagaatcgct gttcctgaag agtcaattta tagctggcct caaccagtgc attggatttg
     3121 taggcaatca gatccgacat tgtaaatccc tcaacctaag gtaatgagta aaatataaac
     3181 attcctttag gtaaaggcaa tatgatttaa ttttaatatc ccttttcctg tgaatattac
     3241 cttaaatcat attgccttta ccttaaatca tattgcctat ccaccttaaa tcatattgcc
     3301 tttaccttaa attatattac ctatagtctt ctaaactctt gaatttcata agaaaattcg
     3361 accctaaaac aagtattaaa aacaagatct taaaaacaag atctaaaaac ttaacggcga
     3421 gcctgtggaa aacttggggt gttcaaaaca aaaaatcatg gaaaacaaca ggttacaaaa
     3481 aagcaggttc gcaagcttta gcaaaacccc gctcaaccct gtggaaatcc agtattcatg
     3541 cgggttcagc gcatatcacc tgtcgaaaaa ccgtgcgtat gtgctcaatc tggcgacgga
     3601 ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg gtcgctgggg ctgcggcgag
     3661 cggacggtgc attcacgcct gttggtcgtt ttctgacact tctttgggga ctggttttgg
     3721 taacgcgttc agttcgtcaa tcaacggctg tatcctgctc acatcagcct gccgtgttac
     3781 ctctgtcttc aggagatgaa gcaaccaggc tcgtagttgt gtttccccag gctccctgac
     3841 ctttgccagc aatgccgctc ccacaatgac cttctgcgct gtgtccaggc tcctgctctt
     3901 cgccttcaga cgctgcaatc tggcctcagc atcggcaatc ttctgttcga gtgttctact
     3961 cattccgtaa ctccgtgcgc ggtgaaaaat cgcattttag cgcgtcactg gtagtttaaa
     4021 aactgaactg gcataatgca cagcaaatca cgaagtgcgc acttatacaa actctccttc
     4081 gtcgagtttg t
//
