LOCUS       NZ_CP042591             4593 bp    DNA     circular CON 21-JUN-2024
DEFINITION  Escherichia coli strain PK6 plasmid pRHEcCUB-3, complete sequence.
ACCESSION   NZ_CP042591
VERSION     NZ_CP042591.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12512712
            Assembly: GCF_008823185.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Hernandez-Fillor,R.E., Brilhante,M., Baez-Arias,M., Espinosa,I. and
            Perreten,V.
  TITLE     First genome of multidrug-resistant E. coli from Cuba carrying
            blaCTX-M-32 on an IncX1 plasmid
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4593)
  AUTHORS   Hernandez-Fillor,R.E., Brilhante,M. and Perreten,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-AUG-2019) Institute of Veterinary Bacteriology,
            University of Bern, Laenggassstrasse 122, Bern 3012, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 14-MAY-2019
            Assembly Method                   :: Unicycler v. 0.4.4
            Assembly Name                     :: CENSAIVB_Ecoli_PK6
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_008823185.1-RS_2024_06_21
            Annotation Date                   :: 06/21/2024 04:08:22
            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)                     :: 4,705
            CDSs (total)                      :: 4,583
            Genes (coding)                    :: 4,379
            CDSs (with protein)               :: 4,379
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 204
            CDSs (without protein)            :: 204
            Pseudo Genes (ambiguous residues) :: 0 of 204
            Pseudo Genes (frameshifted)       :: 58 of 204
            Pseudo Genes (incomplete)         :: 142 of 204
            Pseudo Genes (internal stop)      :: 32 of 204
            Pseudo Genes (multiple problems)  :: 26 of 204
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042591.1.
            Bacteria and source DNA available from Laboratory of Animal
            Bacteriology. National Centre for Animal and Plant Health (CENSA).
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="PK6"
                     /serotype="O162:O89:H10"
                     /isolation_source="healthy pig from farm"
                     /host="Sus scrofa domesticus"
                     /db_xref="taxon:562"
                     /plasmid="pRHEcCUB-3"
                     /geo_loc_name="Cuba: Matanzas"
                     /collection_date="2016-07"
                     /collected_by="Carelia Martha Marrero Moreno"
                     /identified_by="Rosa Elena Hernandez Fillor"
                     /genotype="ST1695"
     gene            complement(397..630)
                     /locus_tag="FTO72_RS23455"
                     /old_locus_tag="FTO72_23455"
     CDS             complement(397..630)
                     /locus_tag="FTO72_RS23455"
                     /old_locus_tag="FTO72_23455"
                     /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="WP_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(637..1197)
                     /locus_tag="FTO72_RS23460"
                     /old_locus_tag="FTO72_23460"
     CDS             complement(637..1197)
                     /locus_tag="FTO72_RS23460"
                     /old_locus_tag="FTO72_23460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<1232..1885)
                     /locus_tag="FTO72_RS24005"
                     /old_locus_tag="FTO72_23465"
                     /pseudo=""
     CDS             complement(<1232..1885)
                     /locus_tag="FTO72_RS24005"
                     /old_locus_tag="FTO72_23465"
                     /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            complement(1875..2198)
                     /locus_tag="FTO72_RS23470"
                     /old_locus_tag="FTO72_23470"
     CDS             complement(1875..2198)
                     /locus_tag="FTO72_RS23470"
                     /old_locus_tag="FTO72_23470"
                     /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="WP_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2261..2452
                     /locus_tag="FTO72_RS23475"
                     /old_locus_tag="FTO72_23475"
     CDS             2261..2452
                     /locus_tag="FTO72_RS23475"
                     /old_locus_tag="FTO72_23475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3122..3271
                     /locus_tag="FTO72_RS24230"
     CDS             3122..3271
                     /locus_tag="FTO72_RS24230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     gene            3463..4302
                     /locus_tag="FTO72_RS23490"
                     /old_locus_tag="FTO72_23490"
     CDS             3463..4302
                     /locus_tag="FTO72_RS23490"
                     /old_locus_tag="FTO72_23490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     Typing          complement(2541..2625)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          2636..3191
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.086"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(300..1885)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 accataacgt cgcattgcgc gtaccgctta aacgcgttca gcgcgatcac ggcagcagac
       61 aggtaaaaac agcaacaaac cacccgaaaa actgccgcga tcgcgcctgg taaattttaa
      121 cctcatgcat agttatgcgc gaaactgaat gacgatcagt ttcgcacgtt ccagccgtcg
      181 aacggggcaa aatggggagg tttggatatt gttaatgcta atgtacgtac attaacattg
      241 gcgccatccg ggtagggcgt gccacaaact ggctcgattt cagggggtac cccggtcaca
      301 tccccattga cgggccacgc cagatccgcg cttcgggttc ctgctcttca tgccagcgcc
      361 gggcaagctc ctgcgcctga cgctcctgtt catcccttat ctgttgttcg tgataaataa
      421 ccgactcaag cggtcgactt gtccggctaa tagctgcacc tgctgactca agttcacgac
      481 acgctcgttc agtatcgcgt tgttctgttg cgtaaccgcg tgcatcttct gcaattctgc
      541 gaaggcgctc tcccactcgt tcagccgccg catatagtcc tgttgcaaat gctctaaggc
      601 gttcagcaaa tgcccttcca gttccgtcat actcgtttac tccctgacca gcctcacggc
      661 gttcttgtcg cccaccgtcc aggtgttttc ccctttcacc ccgtccggca gcaccagaaa
      721 tttcccgttc tcgccattga cgaacgtcac cccccaggtt tttgcctcga gtttcgccag
      781 cgtgttttcc tgctctctga tggtcaagat atttttcgca atcctgcttt cctgccactg
      841 aatcagcccc cagcacccca ggaaaatgcc gcccgtgacg ctgagcgcgg tcagcgccgg
      901 aaacagtacc cgccctttga tcacctgcca gagcaggttt ttctgctgcc gggacagttc
      961 ggcctctgtg gtgctgagct gcgtgctcac ggtggtgctc agcgtatcca gttgctgttt
     1021 cacggatgtt gtatgttcgc tgatagcgtc tctgattttc tgcctgttta agctcagtgc
     1081 cttgtctaca gactcttcta gcttcctgaa ctcgctgttc agcatgttct cggtagaagc
     1141 ggctcgctct ttcagtttct tctcgaagtc cgttcccatt tgtaaaagat tgctcataca
     1201 gcgccccctt tagcctgaga ttccgccccc cctccgggtc ggcaatactg atactgcttc
     1261 tggttgtcct caccacctca aaacctgccg ctgtgagcgc ctcagtgaca tcctgacgcg
     1321 tttttattgc tccggcacgg taaagcgcct caagaccccg tgtaatcgct tctgcggcct
     1381 cctgtttcgc ttttggcaga ttattcggtg tgacaagcgt ccgtctgttc tccggtgcgt
     1441 tcgggtcacg cagcccgtaa tgatgattaa ccagcgtctg ccaggcattt atcctcggcc
     1501 tgtccgcacg gtcgtagtac ggctggaggc gcttaccgct ctgtagttcc atgttcggaa
     1561 tgacaaaatt cagttcgagc cgccccttat cctggtgttc cacccagaga atgctgtact
     1621 ggtctttttc gagaccgggc ataagaacac gctcaaagct cgtcatcact ctttcgcgtt
     1681 cacccggcgg taactccttc tccgcgaacg acagaacgcc tgacgtgtat ttcttcgaaa
     1741 atggcgtggc atcaatgagt tcccggattt cttccgggtt accccggagc accgttgcgc
     1801 cttcgcggtt acgctcccgc cccagcaggt aatcgaccgg gccacttcca ccgcctttcc
     1861 ccctggcatg aaatttaact atcatcccgt cccccctgtt ccctgacagc ctgccgcaac
     1921 tggcgcaatt caccctcgat ggccatcaga gcggccacca catgaacccg gtcaatcgaa
     1981 gaccagtggc cgctgttcac cttccgggct gtctggttca gattgttccc gatggcagcc
     2041 agatgccgca gcaatggcgg cgatagtgtc ggcagttttc ctgtgcgcgc aaccggctcc
     2101 cccagacaga cccgccgcat ccattctgcc agtcgtttac cctcgcagcg ttccagtaac
     2161 cgggcgtgct cctcatcgct aacccgtatc gtgagcatct tctcgcgttt catcggtatc
     2221 attcccccta aaaaatcccc tattaaggag ccttaagacc atgaccaaac aggaaaaaac
     2281 agcccttaac atggcccgct ttatcagaag ccagacgctg accctgctgg aaaaactcaa
     2341 cgagctggac gcggacgaac aggcagacat ctgcgaatca cttcacgacc acgccgacga
     2401 actctaccgt agttgcctcg cacgcttcgg cgatgacggt gaaagcaact gaaacatgca
     2461 gctcccggag acgttcacag cttgcctgtg agcggatgcc gggagcagac aagcccgtca
     2521 gggcgcgtca gcgggtttta gcgggtgtcg gggcgcagcc ctgacccagt cacgtagcga
     2581 tagcggagtg tatactggct taactatgtg gcatcagtgc ggattataag aaaagtgcac
     2641 catatgcggt gtgaaatacc gcacagatgc gtaaggagaa aatgccgtat caggcgctct
     2701 tccgcttcct cgctcactga ctcgctacgc tcggtcgttc ggctgcggcg agcggtatca
     2761 gctcactcaa agacggtgat gcggttatcc acagaatcag gggataacgc caaaagaaac
     2821 atgtgagcaa aaggccagga acaggaagaa ggccgcgccg ctggcgtttt tccataggct
     2881 ccgcccccct gacgagcatc acaaaaacag atgctcaagt cagaggtggc gaaacccgac
     2941 aggactataa agataccagg cgtttccccc tggaagctcc ctcgtgcgct ctcctgttcc
     3001 gaccctgccg cttaccggat acctgtccgc ctttctccct tcgggaagcg tggcgctttc
     3061 tcatagctca cgctgttggt atctcggccc ggtgtaggtc gttcgctcca agctgggctg
     3121 tgtgcacgaa ccccccgttc agcccgaccg ctgcgcctta tccggtaact atcgtcttga
     3181 gtccaacccg gaaagacacg taaaaacgcc actggcagca gccattggta accgtttaga
     3241 ggagttagtc ttgaagttat gcgccggtta aggctaaact gaaaggacag atttggtggc
     3301 tgtgctcctc caagccagtt accttggttc aaagagttgc tgctctgaga accttcgaaa
     3361 agccgccttg ctgggcggtt ttttcgttta cggacaagac taccttcagg atcgttagat
     3421 ctcaagacaa tcatgcatag tgagcataca caggagccga acttgcttac actgttcatc
     3481 ttttttgttt tattaatagc tgcatgtttc ttttgttttg ctccaccacg aagaggatat
     3541 gacagaaatg agatcattcc atacaaaata aaactatcaa taaataaata tcgcctttac
     3601 atatactcat cgggaaaggt aagacaatac cttttatttt tagttatttt atcactgtac
     3661 tactccatag cggaaccatt taagtctgag ttaataaaaa acatatcata ttcactgatg
     3721 gctgcattta tttttgatac agggcttaat tttagcaagg agaatataac taaaggagtg
     3781 atttcaacaa ggtggcataa tgacctatat tcatcatttg agagaatgaa agcaattaat
     3841 aaaatttact acccatccaa caaagagata aacacagaag gtctatccaa agccatcaca
     3901 tcatctcttt tcaatgatga cgcgaactcg ttcgcaaaga gagattttcg cttgatgtgg
     3961 gacttatctt ctgaaaaata tctttcctat aaagaaataa taataagaaa aggcgataag
     4021 cttgacgctg tatgcttgag atttataaat gatgactaca agtttttagt taatttcaac
     4081 agagatgaag aggttttcaa atactttcca tctataatgc aaccttcact caaaacatat
     4141 agagcgttat caagactagt aaactcaatc aaagatcctt ctagatttaa gttcacgaca
     4201 gagtcattag aaatggagtt actagaatac ttagagttaa gaaatgaatt attcaatgac
     4261 atagaagaag taatgggtag ctatgctcag agggcaccat agttcatgat agccctcgat
     4321 agtacttact tatattttta gagaggttta agtgtaagta gagggagtaa cacctggttt
     4381 ttcagcatcc actccaatga atgctgacac cgatacgcga taattctctt tatcgtagca
     4441 aaatcatcct ccagattgcg gttgagaata ggttcatggt gcgcaatacg attgcgcagt
     4501 tttctcacgg gacttgttag cagtaatgct tccccccggg gacaaacgac agagatatac
     4561 aacaaaggcc cgcaattaaa atactccgta ttt
//
