LOCUS       NZ_CP080232             3126 bp    DNA     circular CON 07-SEP-2023
DEFINITION  Escherichia coli O141:H4 strain P13-6 plasmid pP136-9, complete
            sequence.
ACCESSION   NZ_CP080232
VERSION     NZ_CP080232.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN20003587
            Assembly: GCF_019431295.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O141:H4
  ORGANISM  Escherichia coli O141:H4
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3126)
  AUTHORS   Perrat,A., Branchu,P., Decors,A., Turci,S., Bayon-Auboyer,M.-H.,
            Petit,G., Grosbois,V., Brugere,H., Auvray,F. and Oswald,E.
  TITLE     Wild boars as the reservoir of a highly virulent clone of hybrid
            Shiga toxigenic and enterotoxigenic Escherichia coli responsible of
            edema disease
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3126)
  AUTHORS   Auvray,F., Oswald,E. and Perrat,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-JUL-2021) Pathogenesis and commensalism of
            enterobacteria, INSERM IRSD U1220, CHU Purpan, Place du Dr Baylac,
            CS60039, Toulouse 31024, France
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology             :: PacBio RSII; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/04/2023 15:06:45
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,817
            CDSs (total)                      :: 5,678
            Genes (coding)                    :: 5,354
            CDSs (with protein)               :: 5,354
            Genes (RNA)                       :: 139
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 105
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 324
            CDSs (without protein)            :: 324
            Pseudo Genes (ambiguous residues) :: 0 of 324
            Pseudo Genes (frameshifted)       :: 104 of 324
            Pseudo Genes (incomplete)         :: 233 of 324
            Pseudo Genes (internal stop)      :: 46 of 324
            Pseudo Genes (multiple problems)  :: 55 of 324
            Pseudo Genes (short protein)      :: 4 of 324
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP080232.1.
            Bacteria and source DNA available from IRSD.
            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..3126
                     /organism="Escherichia coli O141:H4"
                     /mol_type="genomic DNA"
                     /strain="P13-6"
                     /serotype="O141:H4"
                     /isolation_source="clinical sample"
                     /host="Sus scrofa domesticus"
                     /db_xref="taxon:2861806"
                     /plasmid="pP136-9"
                     /geo_loc_name="France"
                     /lat_lon="46.00 N 2.00 E"
                     /collection_date="2013"
                     /collected_by="Labocea; IRSD"
     gene            complement(join(2787..3126,1..128))
                     /locus_tag="KZW89_RS29105"
     CDS             complement(join(2787..3126,1..128))
                     /locus_tag="KZW89_RS29105"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_258054951.1"
                     /translation="MDTTSLISSISVPRLSFYETFLGCATDQEKVGAYVAYQDLSGDFF
                     CLVQMIEVALRNAINNTIKANHGPAWYDSIPQTKKSQDLVLNAKQKALDECGARYTDDD
                     VICRLTFGFWVYMLDAPYRDTQRPCYIWTPENKAKTFPHAKNPLGGGGYEG"
                     /name="hypothetical protein"
     gene            complement(587..910)
                     /gene="mobA"
                     /locus_tag="KZW89_RS28685"
                     /old_locus_tag="KZW89_28690"
     CDS             complement(587..910)
                     /gene="mobA"
                     /locus_tag="KZW89_RS28685"
                     /old_locus_tag="KZW89_28690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            1194..1388
                     /locus_tag="KZW89_RS28690"
                     /old_locus_tag="KZW89_28695"
     CDS             1194..1388
                     /locus_tag="KZW89_RS28690"
                     /old_locus_tag="KZW89_28695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="WP_023607111.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1858..1971
                     /locus_tag="KZW89_RS29335"
     CDS             1858..1971
                     /locus_tag="KZW89_RS29335"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071790583.1"
                     /translation="MHEPPVQSDYCALSGNYRLESNPERHDLSPLAAATGN"
                     /name="replication initiation protein"
     gene            2333..2476
                     /locus_tag="KZW89_RS28695"
                     /old_locus_tag="KZW89_28700"
     CDS             2333..2476
                     /locus_tag="KZW89_RS28695"
                     /old_locus_tag="KZW89_28700"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016249640.1"
                     /translation="MNTKVLFVKKALKSITCATLSLLPALSRAVTELRSLSAARLKAGK
                     SF"
                     /name="hypothetical protein"
     Typing          complement(920..1156)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.49e-121"
     Typing          1424..1927
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.338"
                     /coverage="95.0"
                     /evalue="3.85e-154"
     Typing          complement(591..910)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="2.13e-62"
ORIGIN
        1 tcgccagaca gatcttggta ggcaacgtat gccccaacct tttcttgatc agtagcgcac
       61 ccaagaaatg tttcatagaa agataatctt ggtacagaaa ttgagctaat taaacttgtt
      121 gtatccatga aaactcactt atctctttac tatgaatatt tttcagacta ccattacaac
      181 attcgaggag caggcgaact accgtttttc tgtgtacctc tagagcgtaa aatataacaa
      241 aaaagcccac tacagagtgg gcttttttgt tatatttatc tatatgaaac aaccagttat
      301 agttattgtt tcataataag gattgaatac tcttcacaat ccataacatc agaaaatact
      361 ttgctgccaa tttaccataa ctccccttac gcgcaccgct aaaacgcgct gaacgcgatt
      421 cagccgcaaa caccgcaaaa agagatgttt tacccagtga aaactggaaa aatgcgtcag
      481 gatcgttttc agctcactgc atagctatgc ataaaagtga atggcgatcg gtttgggggc
      541 ttacggcgtt cataccgtct gttttcgaca gtttctctcc gggaagctaa tctgccataa
      601 gcctggataa cagggcacgg tgatactccg taatagcgat cagcacctcc gcatactccc
      661 tgtccccgac acgcttgccg tcgataaaga gttttttctg taacgccccc agtctcataa
      721 cttctttcag tacccgatca tcagtcagtg agttaacttt cttaccgaga gctgccgccc
      781 gtaaaaaacc ggaaacggtc ttgccgcatt cagcagccct ttttctgatt tcctggtctt
      841 cttctgccgt cagacgaaca gggcgactga tagcccgcct gcgcgtatta cttccacttc
      901 gttttgtcat aaaacatggc tccgtatctg acatgggtgt cggggcaaag ccctgaccag
      961 ggtaattgta atagcgtgca tgcatgcgcg gtataacaat tacacatcct gtcctgtcag
     1021 caagttcgaa ttaccgacaa agacacggca gttttttggc agtgacagta ttgtcaggca
     1081 gaaatacccg tcaaagcgtc agacggcaga ataccggcgg taaaacagtc gaaaagtggt
     1141 acgcgatata atcacacaac gcagatgaca gacagaacgg agaaaacgaa aagatgaaca
     1201 agcagcagca agccgtactc aacatggcag gattcataaa aagccagagc ctgacgctgc
     1261 tcgaaaaact ggacgcactc aatgctgacg aacaggccgc catgtgtgag aagctgcacg
     1321 aactcgcgga agaacttcag aacagcatac agacacgctt tgaagcggaa aatcgcaccg
     1381 ggatataacg catccggaca ggatgcagaa cggcatagag gagcgtaagg agaaaatgtc
     1441 acataaggcg ctcttccgct tcctcgctca ctgactcgct acgctcggtc gttcgactgc
     1501 ggcgagcggt gtcagctcac tcaaaagcgg taatacggtt atccacagaa tcaggggata
     1561 aagccggaaa gaacatgtga gcaaaaagca aagcaccgga agaagccagc gccgcaggcg
     1621 tttttccata ggctccgccc ccctgacgag catcacaaaa atcgacgctc aagtcagagg
     1681 tggcgaaacc cgacaggact taaagatacc aggcgtttcc ccctggtggc tccctcgtgc
     1741 gctctcctgt tcctgccttt cggtttaccg gtgtcattcc gctgttatgg ccgcgtttgt
     1801 ctcattccac gcctgacact cagttccggg taggcagttc gctccaagct ggactgtatg
     1861 cacgaacccc ccgttcagtc cgactactgc gccttatccg gtaactatcg tcttgagtcc
     1921 aacccggaaa ggcacgactt atcgccattg gcagcagcca ctggtaactg atttagagga
     1981 gttagtcttg aagttacgtg ccagttaagg ctaaactgga ataacaagtt ttggtgactg
     2041 cgctcctctt aagccagtta ccgcggttca gaaacttgcc ggttgctgaa ccttcgaaaa
     2101 accaccttgc cgggtggttt tttcgttttt aagattacga tgggcgcgat atgaactcaa
     2161 ggaaatccgt aattaaatta taaaacttcg tgaattaatg gaaaaactga tgtgaatcag
     2221 ctatttatcc ttaagatttg atgttagata tggtataatt aaccattcaa atagatggaa
     2281 taaaaagtca acgctgccat tagaacggca taagaaatag aggattatga aaatgaatac
     2341 taaagttctt tttgtgaaaa aagctttgaa atcaattact tgcgcaactc tttcgctctt
     2401 accggcttta agtcgcgcag taacagagtt acgtagcctt tcggctgcgc gacttaaagc
     2461 cggtaagagc ttttgattgt atcacatttt tccttaaaag tcaaccggct accttaagct
     2521 ccctgcactt aatcctccct ataatcccca taacatactc tatcgtgcag cgttcataaa
     2581 agcgcctatc gtgcccaata aactcaataa gttccttttt ctcgttagag acgatactca
     2641 aggcattcat taaaaaattg aactctttca acatattatt tatggcttga ctatgcgact
     2701 tgcagtggtg ttttttccaa ataggctcat ggtgaaaaag tcgattccta aacaaaagaa
     2761 ctttatgaaa ctcgtcaaac agcgctttaa ccttcatatc cccccccacc caaaggattc
     2821 ttcgcatgag gaaatgtttt tgccttgttc tctggagtcc agatgtagca cggcctttgc
     2881 gtatccctat atggggcatc taacatataa acccaaaagc caaaggttag acggcaaata
     2941 acatcatcat ccgtatacct tgcgccacac tcatctagtg ctttttgttt cgcatttaaa
     3001 acaagatcct gagatttctt tgtttgaggt atagagtcgt accaagcagg cccatgatta
     3061 gctttgattg tattgtttat cgcattacgc agagcaacct caatcatctg gacaagacaa
     3121 aaaaaa
//
