LOCUS       CP122737                5775 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1744 plasmid unnamed4, complete
            sequence.
ACCESSION   CP122737
VERSION     CP122737.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549621
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5775)
  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 5775)
  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                   :: 264x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 12:43:14
            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)                     :: 5,568
            CDSs (total)                      :: 5,440
            Genes (coding)                    :: 5,017
            CDSs (with protein)               :: 5,017
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 423
            CDSs (without protein)            :: 423
            Pseudo Genes (ambiguous residues) :: 0 of 423
            Pseudo Genes (frameshifted)       :: 282 of 423
            Pseudo Genes (incomplete)         :: 139 of 423
            Pseudo Genes (internal stop)      :: 52 of 423
            Pseudo Genes (multiple problems)  :: 45 of 423
            Pseudo Genes (short protein)      :: 4 of 423
            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..5775
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1744"
                     /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..495
                     /locus_tag="QDX03_27260"
     CDS             1..495
                     /locus_tag="QDX03_27260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000929317.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG92364.1"
                     /translation="MAGTVWRDIRTGETVFPMGHLHPQRCCVDVNGTSVDIEISFGFHV
                     FTDEKQTGMLMKFKEEQRFFCRERYEGSKTIVHRILTAIENGEYITAFISKGQGQRYYH
                     LSHHDDFILMEIRKPQDRNNSLRIHVVTAYTLDEWGTVNKGRNLRFRYVLEQRLQGKKI
                     V"
                     /name="hypothetical protein"
     gene            complement(2042..2233)
                     /locus_tag="QDX03_27265"
     CDS             complement(2042..2233)
                     /locus_tag="QDX03_27265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="WHG92365.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2298..2621
                     /locus_tag="QDX03_27270"
     CDS             2298..2621
                     /locus_tag="QDX03_27270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WHG92366.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2830..3261
                     /locus_tag="QDX03_27275"
                     /pseudo=""
     CDS             2830..3261
                     /locus_tag="QDX03_27275"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; 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            3299..3817
                     /locus_tag="QDX03_27280"
     CDS             3299..3817
                     /locus_tag="QDX03_27280"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="WHG92360.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            3824..4057
                     /locus_tag="QDX03_27285"
     CDS             3824..4057
                     /locus_tag="QDX03_27285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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="WHG92361.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            4728..4892
                     /locus_tag="QDX03_27290"
     CDS             4728..4892
                     /locus_tag="QDX03_27290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000968835.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG92362.1"
                     /translation="MMDKDTTTLKRTLAHNRAFSDNINRSGIAWCYNTEIVLAACEAIE
                     AELQRRGCL"
                     /name="hypothetical protein"
     gene            5263..5775
                     /locus_tag="QDX03_27295"
     CDS             5263..5775
                     /locus_tag="QDX03_27295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001445155.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WHG92363.1"
                     /translation="MSARARKAGKRNQSERRQDLIEKLWEDDEIDTWHRLENDGYSTVP
                     RYLPLIGDLMDGLSKGSPLSTTYLALWFRVSDEGLIEIRDKAALAFESGFASERGVTTW
                     AGRMKKLKELGFISCREGSTGEFHYVLIVHPLVAVKKLLDEGIIPKGKTYNILSERVIE
                     VGASWEG"
                     /name="hypothetical protein"
     Typing          1867..1950
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.07e-36"
     Typing          1204..1425
                     /name="rep_cluster_2392"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.825"
                     /coverage="87.0"
                     /evalue="1.42e-85"
     Typing          2612..4161
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atggcgggca cagtatggcg tgacataaga acgggagaga ctgtttttcc tatggggcac
       61 ctgcaccctc agaggtgctg tgttgatgta aacggtactt ctgtagatat agaaattagt
      121 tttggttttc atgtttttac tgatgaaaaa caaaccggaa tgctgatgaa atttaaggag
      181 gaacagaggt ttttttgtag ggaacgctat gagggcagca aaactatcgt tcacagaata
      241 cttacagcga tagaaaacgg tgaatacatt acagcattta tttcaaaggg gcaggggcag
      301 cggtattacc atcttagcca tcatgatgac ttcattttga tggaaataag aaagcctcaa
      361 gatagaaata attctttgcg tattcatgtt gttacagctt acacgcttga tgaatggggg
      421 actgtaaata aaggacgtaa cctgcggttt agatatgtgc tggaacagcg actgcaggga
      481 aagaagattg tgtaaaaaac aaaaagcgcc taaggcgcct ttgttttttg cagaatttcg
      541 gtctggcctt tcgttatccc gctcacaggc tgggagggtg tgacccccgg catcagcacc
      601 cctctctcga ggttccggtt tgtgctgaca acattagtat cctattccac atgttcgttg
      661 tcaaactagc gtactttttg gtgttcattg gtgtttatag gttgtcattt accctctttg
      721 tggttataag tgtttatagg ttttcattgt tttttatagg tgttcatatg aagttgcttg
      781 atagtaatga agtgtgtgag ctcttaggca tcagtaagtc cactttgtat cgttggtgcg
      841 gggtgtctga ggatttttct ggcttgggtc taagtagcgg tcttcctcag gctaacgcta
      901 ctcagaactc tttaggcagg gaaaataggc tcgttaggag ggaattacag caaaacgctc
      961 tcggtgtcga agagacgcca agcgacttcc ctcgtccttt caagatcggt cgttcgttta
     1021 aatggaaaga cgccgaaatt atggcttggc ttgaaacgcg acgcgtttga ttgatagatc
     1081 ttcttgagat catttggatc tcgtcgtagt cttttgtcct gtaaacgaaa aaaccaccat
     1141 ggcaggtggt ttttcgaagg ttatttaatc ctggcagatt gaataaccgt ggtaacagcc
     1201 ttgtgcgaga cgtgtcacca aatctgtcct ttcagtgtag cctcactaag gccaccactt
     1261 caagaacttt gaatacatct ctcgcacatc ctgtttacca atggctaccg ccactggcga
     1321 tttttcgtgt ctgttccggg ttggactcaa gatgatagtt accgggacaa cgtggtagtc
     1381 gggctgaacg gggggttctt gcatacagcc cagcttggag cgaactgtct aaacggaacg
     1441 ggacgtggtg atttaggtaa agcttccacc acaacacgga tgccgcagga cgggaacagg
     1501 agagcgcaag agggagccgc cagggggaaa cgcctggtat ctttaagtcc tgtcgggttt
     1561 cgccacctct gacttgagcg tcgatttttg tgatgctcgt caggggggcg gagcctatgg
     1621 aaaaacgcca gcggcgtggc cttctctggg ttcttgtttt ttgctcacat gtttcttttg
     1681 gtgttatccc ctgattctgt ggataaccgc attaccgtct ttgagtgagc tgataccgct
     1741 cgccgcagcc gaacgaccga gcgtagcgag tcagtgagcg aggaagcgga agagcgtcgg
     1801 aagttgcatt ttctccttac acatctgtgc ggcatttcac acccggcatg gcgcactttt
     1861 catacaatcc gcactgatgc cgcatggtta agccagtata cactccgcta tcgctacgtg
     1921 actgggtcat ggctgcgccc cgacacccgc aaggtcaacg gcctgacgcg ccctgacggg
     1981 cttgtctgct cccggcatcc gctcacagac aagctgtgac cgtctccggg agctgtatgt
     2041 gtcagaggtt ttcaccgtca tccccgaagc gtgcgaggca gctgcggtaa agctcatcgg
     2101 cgtggtcgtg aagcgattca cagatgtctg cctgttcatc cgcgtccagt tcgttgagct
     2161 tttccagcag cgttaatgtc tggcttctga taaagcgggc catgttaagg gcggtttttt
     2221 cctgtttagt cactgatgcc tccgtgtaag gggggatttc tgttcatggg gtaatgatac
     2281 cgatgaaacg cgagaggatg ctcacgatac gggttactga tgatgaacat gcacggttac
     2341 tggaacgctg tgagggtaaa cagctggcgg tatggatgcg gcgggtctgt ctgggtgagc
     2401 cggttgcccg ttccgggaag ctgccgacac tggcaccgcc gttactgcgc cagctggctg
     2461 ccatcgggaa taatctgaat cagacggcga ggaaggtgaa cagcgggcag tggtcttccg
     2521 gtgaccgggt tcaggtggtg gccgcactga tggccatcga gagagagttg cgcagcttac
     2581 ggcaggtcgt cagggaacat ggagcgcggg atgatagtta agtttcatgc caggggaaaa
     2641 ggcggtggca gtggtccggt tgattacctg ctgggaaggg agcgtaaccg ggaaggggca
     2701 acggtgcttc agggtaatcc ggaagaagtc cgggaactca tcgatgccac gccatttgcg
     2761 aagaaataca cgtcaggtgt tctgtcgttc gcggagaagg agctgccgcc gggaggacgt
     2821 gaaaaggtga tggcgagctt tgagcgtgta ctgatgcccg gtctcgaaaa aaatcagtac
     2881 agcatcctgt gggtggagca ccaggacaag ggacggcttg agctgaattt tgtcattccg
     2941 aacatggagc tacagagcgg aaaacgcctc cagccgtact acgaccgggc agacaggccg
     3001 agaattgatg cctggcagac gctggttaat caccattacg ggctgcatga ccccaacgcc
     3061 ccggagaacc gccggatact gactctccct gataacctgc cggaaacgaa acaggcgctt
     3121 gcagagagcg tcacacgcgg gatagacgct ctttatcatg tcggggagat aaaaggccgt
     3181 caggatgtga ttcaggcgct cacagaggca gggcttgaag tggtcagggt gacgcgaagc
     3241 agtatcagca ttgcagaccc gaacggcggg aagaatatca gactgaaagg agcattctat
     3301 gagcaatctt ttacagacgg gcgcggagtt cgagaaaaag ctgaaagaga gagccgaatc
     3361 tacagagaca atgctgaacg acgagttcag caagctcgaa aaatctgtaa gcaaggctgt
     3421 gacatcaaac gagacgaaaa tcaaagacgc tatagccctg ttcacagctt cgacagagga
     3481 atcactgaaa aaacaccggg aaggggtgaa agaggcgatg atgcagcaca ggaaggacgt
     3541 gttaaagctg gcagggaata cgggcatgat gttactgggg atggtccttt tcctgtttac
     3601 cgtgagtggc gggacgctct ggtatcttgg cgggcggata caggcgaacc tggaagaaat
     3661 caggatacag gaagaaacat tgcagaaact gaacgcgaag acatggggcg tggagtttgt
     3721 gcaggacggg agaaggaaat ttctggtcct tccgtacggg aaatcggcaa cggtgattcc
     3781 ctatcaggag aaggactggg tacaactgac ggagtgacac agagtgacgg agctggaaag
     3841 acatttgctg aacgccttag agcaactgca acaggactat atgcagcggc tgagcgaatg
     3901 ggagagcgcc ttcgtggaat tgcagaaaat gttttcgctt acgcaacggg acaacgcgat
     3961 gctgaacgag caggtcatgc agttgagtca gcaggtgcag cacttgagcg agcggacaga
     4021 acgcttgagc cagttataca gcgagaacag gagataaggg acgaacggct gatacaggag
     4081 cgcgaacatg agttatccct ggagcgtgag cgccagccgg aaatacagga atggacacag
     4141 gatggccctt cgcttggatg gtaatcagag acaggctaaa atgttgtcag cgcgtttccg
     4201 gtgcattttt tgggataatg gttggttcgg gggcaccggg aacgcgcttc agtcagacct
     4261 tgctgaaaac acaggaacgc gttaaaacgc atacgggcgc gattctggtg tgtcttttgt
     4321 tgctgtgttt tgcctctatt gccagatcgc gctcattccc ctgaacttct gttttcccgc
     4381 tccggtcccc gtcttcttcg cttccgaaag catgaaaaaa atccgtttca gctgtctctg
     4441 gctggcaatt cctgcgtgat tcacatggct gcatagctat gcatgtggtt aaaatttacc
     4501 gggtgcgatc gcggcagttt ttcgggtggt ttgttgccat ttttacctgt ctgctgccgt
     4561 gatcgcaccg aacgcgtttc tgcggtgcgg gcaacggatg ttatggtaaa tattggtgct
     4621 ctgggatgaa gcgaaaatag gctttttttc gctattttag cctgttcagg aacggcaaga
     4681 gtaaatatct gggagcatga agctcgttaa cctgaatgga gatcctgatg atggacaaag
     4741 ataccaccac cctaaaacgc actttggctc ataatcgagc ctttagcgat aatattaacc
     4801 gcagtggcat agcctggtgc tataacactg agattgtact cgctgcttgt gaggcgattg
     4861 aagccgaact acaacggcga ggatgtttgt aacaataaga aaacccgcat cagcgggttt
     4921 tttagtctct gagacgcgct accgctaaat tatttttctc tctatccgcc ctggcttgcc
     4981 ccctacaacc ccatggagca caaggagcac agggagaacc atcgagcaca acgagcacaa
     5041 tgagcaccgc cttcctctta taaatcatta ttaatcatat aattaaacaa cttcattgta
     5101 atatatatta ctttttatgt ttttaaatgt aatgtttatt gcgatttagc ttgtttttaa
     5161 ctctattttt tcagatgaga acaagctgcc agcaatgaat aactatttga ttttattggt
     5221 tttttcaata aattagtgtc catagacaaa cgggagacga ctatgtccgc aagagcaaga
     5281 aaagcaggta agagaaatca gtcagaacga cgtcaggatt tgattgaaaa attgtgggaa
     5341 gacgacgaaa tcgatacttg gcatcgactt gaaaatgatg ggtactcaac agttccacgt
     5401 tatttgcctt tgataggcga tctcatggat ggtctgtcaa aaggatcacc attatcaaca
     5461 acctacttgg ctttatggtt cagggtttct gatgaggggt tgattgaaat aagagataaa
     5521 gcagcactgg cttttgaatc agggttcgct agtgaaagag gcgtaactac atgggcaggg
     5581 agaatgaaaa agctaaaaga actggggttc atatcctgtc gtgaaggcag caccggtgaa
     5641 tttcattacg tgttaattgt tcacccatta gttgcagtca aaaagctgct tgatgaaggg
     5701 attatcccta aaggaaagac ttataacatt ttgtcggagc gtgtaattga ggtgggagcc
     5761 tcttgggagg gttaa
//
