LOCUS       CP122840                5162 bp    DNA     circular BCT 15-MAY-2023
DEFINITION  Escherichia coli strain ETEC1729 plasmid unnamed3, complete
            sequence.
ACCESSION   CP122840
VERSION     CP122840.1
DBLINK      BioProject: PRJNA917806
            BioSample: SAMN32549606
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5162)
  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 5162)
  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                   :: 237x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/14/2023 13:06:01
            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)                     :: 5,450
            CDSs (total)                      :: 5,333
            Genes (coding)                    :: 4,902
            CDSs (with protein)               :: 4,902
            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)              :: 431
            CDSs (without protein)            :: 431
            Pseudo Genes (ambiguous residues) :: 0 of 431
            Pseudo Genes (frameshifted)       :: 269 of 431
            Pseudo Genes (incomplete)         :: 170 of 431
            Pseudo Genes (internal stop)      :: 60 of 431
            Pseudo Genes (multiple problems)  :: 60 of 431
            Pseudo Genes (short protein)      :: 3 of 431
            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..5162
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="ETEC1729"
                     /isolation_source="feces"
                     /host="Sus scrofa"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="Belgium"
                     /collection_date="2020"
                     /collected_by="IMM_DI04"
     gene            join(4849..5162,1..11)
                     /locus_tag="QDW97_25950"
                     /pseudo=""
     CDS             join(4849..5162,1..11)
                     /locus_tag="QDW97_25950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="frameshifted; 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            220..651
                     /locus_tag="QDW97_25955"
                     /pseudo=""
     CDS             220..651
                     /locus_tag="QDW97_25955"
                     /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            689..1207
                     /locus_tag="QDW97_25960"
     CDS             689..1207
                     /locus_tag="QDW97_25960"
                     /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="WHG34431.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVLFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVLPYGKSATVIPYQ
                     EKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            1214..1447
                     /locus_tag="QDW97_25965"
     CDS             1214..1447
                     /locus_tag="QDW97_25965"
                     /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="WHG34432.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2267..2668)
                     /locus_tag="QDW97_25970"
     CDS             complement(2267..2668)
                     /locus_tag="QDW97_25970"
                     /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="WHG34433.1"
                     /translation="MIDIQKLISWLGVEGAKAGLDKSEMTNAELIESFGNLLPKNPSKL
                     KRSDLVEEIILATRRMTHKSVEELMEMSKEDLYSYFHDQKYSRKELLDLLYTLEIRPGS
                     SAKKNLTEFTISEISDIGMYRRVAKGNHA"
                     /name="hypothetical protein"
     gene            complement(2665..3549)
                     /locus_tag="QDW97_25975"
     CDS             complement(2665..3549)
                     /locus_tag="QDW97_25975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505259.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0005524 - ATP binding [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="ParA family protein"
                     /protein_id="WHG34428.1"
                     /translation="MAVTVGFISEKGGVGKTTSCYHIAEGLSRFHEKRVLVIDADYQRG
                     GITGRFFPKLIENFGNQAPQGTTLFNKYQQLYSAAQQTTDIDIIKFNSGIDVIPADPRL
                     STVSTDKLPSTNNIRSNNAILLQHLKTISAVLSPIADNYDYILIDSHPEVSDVMRSIIY
                     ASDYCVSPVKLDRQSSIGVATVIGEINNVNEDIEMLRKALQVGDSYKDTVFAGAMGMMA
                     REYAEELKQTEQYEYNRLRQAGDIFKHYITEGDGLRVAAAERVSVYDVQISNAYKQASQ
                     FKNLTIEFMRTCR"
                     /name="ParA family protein"
     gene            complement(3798..3929)
                     /locus_tag="QDW97_25980"
     CDS             complement(3798..3929)
                     /locus_tag="QDW97_25980"
                     /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="replication initiation protein"
                     /protein_id="WHG34429.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKAPLAAAMSKGVYKIY"
                     /name="replication initiation protein"
     gene            complement(4593..4784)
                     /locus_tag="QDW97_25985"
     CDS             complement(4593..4784)
                     /locus_tag="QDW97_25985"
                     /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="WHG34430.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4319..4497
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.503"
                     /coverage="100.0"
                     /evalue="9.61e-56"
     Typing          complement(3807..4348)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.625"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          2..1551
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4820..5109
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.938"
                     /coverage="82.0"
                     /evalue="3.2000000000000008e-56"
ORIGIN
        1 atgatagtta aatttcatgc caggggaaaa ggcggtggca gtggtccggt tgattacctg
       61 ctgggaaggg agcgtaaccg ggaaggcgca acggtgcttc agggtaatcc ggaagaagtc
      121 cgggaactca tcgatgccac gccatttgcg aagaaataca cgtcaggtgt tctgtcgttc
      181 gcggagaagg agctgccgcc gggaggacgt gaaaaggtga tggcgagctt tgagcgtgta
      241 ctgatgcccg gtctcgaaaa aaatcagtac agcatcctgt gggtggagca ccaggacaag
      301 ggacggcttg agctgaattt tgtcattccg aacatggagc tacagaccgg aaaacgcctc
      361 cagccgtact acgaccgggc agacaggccg agaattgatg cctggcagac gctggttaat
      421 caccattacg ggctgcatga ccccaacgcc ccggagaacc gccggatact gactctccct
      481 gataacctgc cggaaacgaa acaggcgctt gcagagagcg tcacacgcgg gatagacgct
      541 ctttatcatg tcggggagat aaaaggccgt caggatgtga ttcaggcgct cacagaggca
      601 gggcttgaag tggtcagggt gacgcgaagc agtatcagca ttgcagaccc gaacggcggg
      661 aagaatatca gactgaaagg agcattctat gagcaatctt ttacagacgg gcgcggagtt
      721 cgagaaaaag ctgaaagaga gagccgaatc tacagagaca atgctgaacg acgagttcag
      781 caagctcgaa aaatctgtaa gcaaggctgt gacatcaaac gagacgaaaa tcaaagacgc
      841 tatagccctg ttcacagctt cgacagagga atcactgaaa aaacaccggg aaggggtgaa
      901 agaggcgatg atgcagcaca ggaaggacgt gttaaagctg gcagggaata cgggcatgat
      961 gttactgggg atagtccttt tcctgtttac cgtgagtggc gggacgctct ggtatcttgg
     1021 cgggcggata caggcgaacc tggaagaaat caggatacag gaagaaacat tgcagaaact
     1081 gaacgcgaag acatggggcg tggagtttgt gcaggacggg agaaggaaat ttctggtcct
     1141 tccgtacggg aaatcggcaa cggtgattcc ctatcaggag aaggactggg tacaactgac
     1201 ggagtgacac agagtgacgg agctggaaag acatttgctg aacgccttag agcaactgca
     1261 acaggactat atgcagcggc tgagcgaatg ggagagcgcc ttcgtggaat tgcagaaaat
     1321 gttttcgctt acgcaacggg acaacgcgat gctgaacgag caggtcatgc agttgagtca
     1381 gcaggtgcag cacttgagcg agcggacaga acgcttgagc cagttataca gcgagaacag
     1441 gagataaggg acgaacggct gatacaggag cgcgaacatg agttatccct ggagcgtgag
     1501 cgccagccgg aaatacagga atggacacag gatggccctt cgcttggatg gtaatcagag
     1561 acaggctaaa atgttgtcag cgcgtttccg gtgcattttt tgggataatg gttggttcgg
     1621 gggcaccggg aacgcgcttc agtcagacct tgctgaaaac acaggaacgc gttaaaacgc
     1681 atacgggcgc gattctggtg tgtcttttgt tgctgtgttt tgcctctatt gccagatcgc
     1741 gctcattccc ctgaacttct gttttcccgc tccggtcccc gtcttcttcg cttccgaaag
     1801 catgaaaaaa atccgtttca gctgtctctg gctggcaatt cctgcgtgat tcacatggct
     1861 gcatagctat gcatgtggtt aaaatttacc gggtgcgatc gcggcagttt ttcgggtggt
     1921 ttgttgccat ttttacctgt ctgctgccgt gatcgcaccg aacgcgtttc tgcggtgcgg
     1981 gcaacggatg ttatggtaaa taggttcgtc cggtatgctc aatgaagata agccagtttt
     2041 taactgattc ttttttcgat cgtttgaaac aagaatagta tttggcaata gcggttgtct
     2101 ttatctagcc aagcacaatt agctagatct atgtaaccgt tattttgaga cgatccatat
     2161 ccgatgaccg tcatcgcttt tgattctgac tttaagtaaa ctatatcgcc tatattaaat
     2221 ggcatttttt tatcctataa aaagccacct cacaggtggc ttttatttat gcatgattcc
     2281 ctttcgctac gcgacgatac atgccaatat cacttatctc acttattgtg aactcggtta
     2341 gatttttctt tgctgagctc ccaggtctga tttcaagagt atataacaaa tcaagaagtt
     2401 cttttctgct atatttctga tcgtggaaat atgaatacag atcttctttt gacatttcca
     2461 tcagttcttc aactgattta tgtgtcattc tccttgttgc taaaataatc tcctcaacga
     2521 gatcggagcg ttttaatttg cttgggttct ttggaagtaa attaccaaag gattcaatta
     2581 gctcggcatt agtcatttca cttttatcca agccagcttt agctccctca acgccaagcc
     2641 aagatatcag tttttggata tctatcatcg acaagtcctc ataaactcaa tcgtcaagtt
     2701 cttaaactgt gacgcttgtt tgtaagcgtt acttatctgt acatcataca ctgaaacgcg
     2761 ctctgctgca gctactctta gcccatcacc ttccgttatg tagtgcttga agatgtcacc
     2821 tgcttgccga agcctgttgt attcatattg ctctgtttgc ttcagttctt ctgcatattc
     2881 tctggccatc attcccattg ctccggcgaa aactgtgtcc ttatatgaat cgccgacttg
     2941 cagtgccttt cttagcattt caatatcttc atttacatta tttatctcac ctatgaccgt
     3001 ggccacacca atagatgatt gcctgtctag ttttaccggt gatacacaat aatctgatgc
     3061 gtagattata gagcgcatga catcagaaac ttcggggtgt gaatcaatca atatgtagtc
     3121 ataattatct gcaataggtg ataatacagc gcttatggtt tttaaatgct gtaaaagaat
     3181 ggcattgttc gatcttatat tgtttgtact aggtagctta tcagttgaaa cggttgataa
     3241 gcgagggtcg gctggaatga catcgatacc actattaaat ttaattatgt ctatgtcagt
     3301 cgtttgttgt gccgcgctat ataattgctg atacttgtta aataacgttg ttccttgcgg
     3361 tgcttgattt ccaaagtttt cgatcagttt agggaaaaat cttccagtta tacccccgcg
     3421 ttgataatct gcatctataa ctaaaacacg tttttcatga aaacgactaa gtccttcggc
     3481 aatgtgataa caggacgttg ttttaccaac cccacctttc tcactaataa acccaactgt
     3541 cacagccatt tttattcctt acaaatctct tttttttggt agagggaaca gcgtcaacgc
     3601 tttccttgac gttcagtata acgtcagcgt actcttagcc atcaaacgaa aaaaaccgac
     3661 tggggagtcg gttttttcga gggttcagta agttggggaa cttctgaacc gtggtaacag
     3721 ggtgtacaag accgctgaaa ccaaattctg ttattccagt ttagcctctc taaggctgat
     3781 acttcaagaa ctctcactca gtaaatcttg tacacccctt tactcatggc tgctgccagt
     3841 ggcgctttgt cgtgtctttc cgggttggac tcaagtcgat agttaccgga acaggcgcag
     3901 cagtcggact gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgcctacccg
     3961 gaactgagtg tcaggcgtgg aatgagataa acgcggccat aacagcggaa tgacaccggt
     4021 aaaccgaaag gcaggaacag gagagcgcac gagggagcca ccagggggaa acgcctggta
     4081 tctttatagt cctgtcgggt ttcgccacca ctgatttgag cgtcagattt cgtgatgctt
     4141 gtcagggggg cggagcctat ggaaaaacgg cttcgccgcg accctatcgc tgtccctggt
     4201 cttttgctca caagtatctt cctggcctta tcccctgatc cagtggaaat ctccgccacc
     4261 gttcttgtgt aagccatttc cgctcgccgc agtcgaacga ccgagcgtag cgagtcagtg
     4321 agcgaggaag cggaatatat cctgtatcat gcatattctg ctgacgctcc tgtgccgcct
     4381 ttttctcctg ccacatgaag cactttcctg atacaatccg cactcatgcc aacatagtta
     4441 agccagtata cactccgcta tcgctacgtg actgggtcat ggctgcgccc cgacacccgc
     4501 taaggtcaac cgcctgacgc gccctgacgg gcttgtctgc tcccggcatc cgctcacaga
     4561 caagctgtga ccgtctccgg gagctgtatg tgtcagaggt tttcaccgtc atccccgaaa
     4621 cgtgcgaggc agctgcggta aagctcatcg gcgtggtcgt gaagcgattc acaaatatct
     4681 gcctgttcat ccgcgtccag ttcgttgagc ttttccagca gcgttaatgt ctggcttctg
     4741 ataaagcggg ccatgttaag ggcggttttt tcctgtttag tcactgatgc ctccgtgtaa
     4801 ggggggattt ctgttcatgg ggtaatgata ccgatgaaac gcgagaggat gctcacaata
     4861 cgggttactg atgatgaaca tgcacggtta ctggaacgct gtgagggtaa acaactggcg
     4921 gtatggatgc ggcgggtctg tctgggtgag ccggttgccc gttccgggaa gctgccgaca
     4981 ctggcaccgc cgttactgcg ccagctggct gccatcggga ataatctgaa tcagacggcg
     5041 aggaaggtga acagcgggca gtggtcttcc ggtgaccggg ttcaggtggt ggccgcactg
     5101 atggccatcg agagatgagt tgcgcagctt acggctggtc gtcagggaac atggagcgcg
     5161 gg
//
