LOCUS       NZ_CP087575             5411 bp    DNA     circular CON 23-JAN-2024
DEFINITION  Escherichia coli strain OSUCMP42NDM plasmid pCMP42-4, complete
            sequence.
ACCESSION   NZ_CP087575
VERSION     NZ_CP087575.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN23219802
            Assembly: GCF_020985225.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5411)
  AUTHORS   Ballasha,G.A.
  TITLE     White-tailed deer from urban and suburban environments serve as
            reservoirs for Cephalosporin and Carbapenem-Resistant
            Enterobacteriaceae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5411)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-NOV-2021) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2020
            Assembly Method                   :: HGAP v. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 865x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/23/2024 02:12:25
            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)                     :: 4,931
            CDSs (total)                      :: 4,814
            Genes (coding)                    :: 4,609
            CDSs (with protein)               :: 4,609
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 205
            CDSs (without protein)            :: 205
            Pseudo Genes (ambiguous residues) :: 0 of 205
            Pseudo Genes (frameshifted)       :: 74 of 205
            Pseudo Genes (incomplete)         :: 127 of 205
            Pseudo Genes (internal stop)      :: 35 of 205
            Pseudo Genes (multiple problems)  :: 32 of 205
            Pseudo Genes (short protein)      :: 3 of 205
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP087575.1.
            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..5411
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="OSUCMP42NDM"
                     /isolation_source="Cecal"
                     /host="Free-range White-tailed deer"
                     /db_xref="taxon:562"
                     /plasmid="pCMP42-4"
                     /geo_loc_name="USA: Ohio"
                     /collection_date="2019"
                     /collected_by="Ohio State Univ"
     gene            complement(304..495)
                     /locus_tag="KUA31_RS00035"
                     /old_locus_tag="KUA31_00035"
     CDS             complement(304..495)
                     /locus_tag="KUA31_RS00035"
                     /old_locus_tag="KUA31_00035"
                     /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            558..881
                     /locus_tag="KUA31_RS00040"
                     /old_locus_tag="KUA31_00040"
     CDS             558..881
                     /locus_tag="KUA31_RS00040"
                     /old_locus_tag="KUA31_00040"
                     /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            1090..>1527
                     /locus_tag="KUA31_RS00045"
                     /old_locus_tag="KUA31_00045"
                     /pseudo=""
     CDS             1090..>1527
                     /locus_tag="KUA31_RS00045"
                     /old_locus_tag="KUA31_00045"
                     /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            1559..2119
                     /locus_tag="KUA31_RS00050"
                     /old_locus_tag="KUA31_00050"
     CDS             1559..2119
                     /locus_tag="KUA31_RS00050"
                     /old_locus_tag="KUA31_00050"
                     /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            2126..2359
                     /locus_tag="KUA31_RS00055"
                     /old_locus_tag="KUA31_00055"
     CDS             2126..2359
                     /locus_tag="KUA31_RS00055"
                     /old_locus_tag="KUA31_00055"
                     /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(3088..3672)
                     /locus_tag="KUA31_RS00060"
                     /old_locus_tag="KUA31_00060"
     CDS             complement(3088..3672)
                     /locus_tag="KUA31_RS00060"
                     /old_locus_tag="KUA31_00060"
                     /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_001708514.1"
                     /translation="MAAFIFDTGLNFSKENITKGVISTRWHNDLYSSFERMKAINKIYY
                     PSNKEINTEGLSKAITSSLFNDDANSFAKRDFRLMWDLSSEKYLSYKEIIIRKGDKLDA
                     VCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPSLKTYRALSRLVNSIKDPSRFKFTTES
                     LEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            3840..4537
                     /locus_tag="KUA31_RS00065"
                     /old_locus_tag="KUA31_00065"
     CDS             join(3840..4089,4089..4537)
                     /locus_tag="KUA31_RS00065"
                     /old_locus_tag="KUA31_00065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558260.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS1-like element IS1B family transposase"
                     /protein_id="WP_095033700.1"
                     /translation="MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTY
                     TASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTIFRHFKKLRPQSVTSRIQPGSDVIV
                     CAEMDEQWGYVGAKSRQRWLFYAYDRLRKTVVAHVFGERTMATLGRLMSLLSPFDVVIW
                     MTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVI
                     GHYLNIKHYQ"
                     /name="IS1-like element IS1B family transposase"
     gene            complement(4896..5045)
                     /locus_tag="KUA31_RS24535"
     CDS             complement(4896..5045)
                     /locus_tag="KUA31_RS24535"
                     /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"
     Typing          132..216
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          4704..5155
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          872..2457
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccgctcgccg cagccgaacg accgagcgta gcgagtcagt gagcgaggaa gcggaagagc
       61 gcctgatgcg gcattttctc cttacgcata tgtgcggtat ttcacaccgc atatggtgca
      121 cttttcttat aatccgcact gatgccacat agttaagcca gtatacactc cgctatcgct
      181 acgtgactgg gtcagggctg cgccccgaca cccgctaaaa cccgctgacg cgccctgacg
      241 ggcttgtctg ctcccggcat ccgctcacag gcaagctgtg aacgtctccg ggagctgcat
      301 gtttcagttg ctttcaccgt catcgccgaa gcgtgcgagg caactacggt agagttcgtc
      361 ggcgtggtcg tgaagtgatt cgcagatgtc tgcctgttcg tccgcgtcca gctcgttgag
      421 tttttccagc agggtcagcg tctggcttct gataaagcgg gccatgttaa gggctgtttt
      481 ttcctgtttg gtcatggtct taaggctcct taatagggga ttttttaggg ggaatgatac
      541 cgatgaaacg cgagaagatg ctcacgatac gggttagcga tgaggagcac gcccggttac
      601 tggaacgctg cgagggtaaa cgactggcag aatggatgcg gcgggtctgt ctgggggagc
      661 cggttgcgcg cacaggaaaa ctgccgacac tatcgccgcc attgctgcgg catctggctg
      721 ccatcgggaa caatctgaac cagacagccc ggaaggtgaa cagcggccac tggtcttcga
      781 ttgaccgggt tcatgtggtg gccgcactga tggccatcga gggtgaattg cgccagttgc
      841 ggcaggctgt cagggaacag gggggacggg atgatagtta aatttcatgc cagggggaaa
      901 ggcggtggaa gtggcccggt cgattacctg ctggggcggg agcgtaaccg cgaaggcgca
      961 acggtgctcc ggggtaaccc ggaagaaatc cgggaactca ttgatgccac gccattttcg
     1021 aagaaataca cgtcaggcgt tctgtcgttc gcggagaagg agttaccgcc gggtgaacgc
     1081 gaaagagtga tgacgagctt tgagcgtgtt cttatgcccg gtctcgaaaa agaccagtac
     1141 agcattctct gggtggaaca ccaggataag gggcggctcg aactgaattt tgtcattccg
     1201 aacatggaac tacagagcgg taagcgcctc cagccgtact acgaccgtgc ggacaggccg
     1261 aggataaatg cctggcagac gctggttaat catcattacg ggctgcgtga cccgaacgca
     1321 ccggagaaca gacggacgct tgtcacaccg aataatctgc caaaagcgaa acaggaggcc
     1381 gcagaagcga ttacacgggg tcttgaggcg ctttaccgtg ccggagcaat aaaaacgcgt
     1441 caggatgtca ctgaggcgct cacagcggca ggttttgagg tggtgaggac aaccagaagc
     1501 agtatcagta ttgccgaccc ggaggggggg cggaatctca ggctaaaggg ggcgctgtat
     1561 gagcaatctt ttacaaatgg gaacagactt cgagaagaaa ctgaaagagc gagccgcttc
     1621 taccgagaac atgctgaaca gcgagttcag gaagctagaa gagtctgtag acaaggcact
     1681 gagcttaaac aggcagaaaa tcagagacgc tatcagcgaa catacaacat ccgtgaaaca
     1741 gcaactggat acgctgagca ccaccgtgag cacgcagctc agcaccacag aggccgaact
     1801 gtcccggcag cagaaaaacc tgctctggca ggtgatcaaa gggcgggtac tgtttccggc
     1861 gctgaccgcg ctcagcgtca cgggcggcat tttcctgggg tgctgggggc tgattcagtg
     1921 gcaggaaagc aggattgcga aaaatatctt gaccatcaga gagcaggaaa acacgctggc
     1981 gaaactcgag gcaaaaacct ggggggtgac gttcgtcaat ggcgagaacg ggaaatttct
     2041 ggtgctgccg gacggggtga aaggggaaaa cacctggacg gtgggcgaca agaacgccgt
     2101 gaggctggtc agggagtaaa cgagtatgac ggaactggaa gggcatttgc tgaacgcctt
     2161 agagcatttg caacaggact atatgcggcg gctgaacgag tgggagagcg ccttcgcaga
     2221 attgcagaag atgcacgcgg ttacgcaaca gaacaacgcg atactgaacg agcgtgtcgt
     2281 gaacttgagt cagcaggtgc agctattagc cggacaagtc gaccgcttga gtcggttatt
     2341 tatcacgaac aacagataag ggatgaacag gagcgtcagg cgcaggagct tgcccggcgc
     2401 tggcatgaag agcaggaacc cgaagcgcgg atctggcgtg gcccgtcaat ggggatgtga
     2461 ccggggtgcc ccctgaaatc gagccagttt gtggcacgcc ctacccggat ggcgccaatg
     2521 ttaatgtacg tacattagca ttaacaatat ccaaacctcc ccattttgcc ccgttcgacg
     2581 gctggaacgt gcgaaactga tcgtcattca gtttcgcgca taactatgca tgaggttaaa
     2641 atttaccagg cgcgatcgcg gcagtttttc gggtggtttg ttgctgtttt tacctgtctg
     2701 ctgccgtgat cgcgctgaac gcgtttaagc ggtacgcgca atgcgacgtt atggtaaata
     2761 cggagtattt taattgcggg aattaaaaca acaaaggccc gctgtactct atacagcggg
     2821 cctttgttgt atatctctgt cgtttgtccc cgggggggaa gcattactgc taacaagtcc
     2881 cgtgagaaaa ctgcgcaatc gtattgcgca ccatgaacct attctcaacc gcaatctgga
     2941 ggatgatttt gctacgataa agagaattat cgcgtatcgg tgtcagcatt cattggagtg
     3001 gatgctgaaa aaccaggtgt tactccctct acttacactt aaacctctct aaaaatataa
     3061 gtaagtacta tcgagggcta tcatgaacta tggtgccctc tgagcatagc tacccattac
     3121 ttcttctatg tcattgaata attcatttct taactctaag tattctagta actccatttc
     3181 taatgactct gtcgtgaact taaatctaga aggatctttg attgagttta ctagtcttga
     3241 taacgctcta tatgttttga gtgaaggttg cattatagat ggaaagtatt tgaaaacctc
     3301 ttcatctctg ttgaaattaa ctaaaaactt gtagtcatca tttataaatc tcaagcatac
     3361 agcgtcaagc ttatcgcctt ttcttattat tatttcttta taggaaagat atttttcaga
     3421 agataagtcc cacatcaagc gaaaatctct ctttgcgaac gagttcgcgt catcattgaa
     3481 aagagatgat gtgatggctt tggatagacc ttctgtgttt atctctttgt tggatgggta
     3541 gtaaatttta ttaattgctt tcattctctc aaatgatgaa tataggtcat tatgccacct
     3601 tgttgaaatc acccctttag ttatattctc cttgctaaaa ttaagccctg tatcaaaaat
     3661 aaatgcagcc atcagtgaat atgatatgtt ttttattaac tcagacttaa atggttccgc
     3721 tatggagtag tacagtgata aaataactaa aaataaaagg tattgtctta cctttcccga
     3781 tgagggtgat gctgccaact tactgattta gtgtatgatg gtgtttttga ggtgctccag
     3841 tggcttctgt ttctatcagc tgtccctcct gttcagctac tgacggggtg gtgcgtaacg
     3901 gcaaaagcac cgccggacat cagcgctatc tctgctctca ctgccgtaaa acatggcaac
     3961 tgcagttcac ttacaccgct tctcaacccg gtacgcacca gaaaatcatt gatatggcca
     4021 tgaatggcgt tggatgccgg gcaaccgccc gcattatggg cgttggcctc aacacgattt
     4081 tccgccattt aaaaaactca ggccgcagtc ggtaacctcg cgcatacagc cgggcagtga
     4141 cgtcatcgtc tgcgcggaaa tggacgaaca gtggggatac gtcggggcta aatcgcgcca
     4201 gcgctggctg ttttacgcgt atgacaggct ccggaagacg gttgttgcgc acgtattcgg
     4261 tgaacgcact atggcgacac tggggcgtct tatgagcctg ctgtcaccct ttgacgtggt
     4321 gatatggatg acggatggct ggccgctgta tgaatcccgc ctgaagggaa agctgcacgt
     4381 aatcagcaag cgatatacgc agcgaattga gcggcataac ctgaatctga ggcagcacct
     4441 ggcacggctg ggacggaagt cgctgtcgtt ctcaaaatcg gtggagctgc atgacaaagt
     4501 catcgggcat tatctgaaca taaaacacta tcaataagtt ggagtcatta cccccgatga
     4561 gtatatgtaa aggcgatatt tatttattga tagttttatt ttgtatggaa tgatctcatt
     4621 tctgtcatat cctcttcgtg gtggagcaaa acaaaagaaa catgcagcta ttaataaaac
     4681 aaaaaagatg aacagtgtaa gcaagttcgg ctcctgtgta tgctcactat gcatgattgt
     4741 cttgagatct aacgatcctg aaggtagtct tgtccgtaaa cgaaaaaacc gcccagcaag
     4801 gcggcttttc gaaggttctc agagcagcaa ctctttgaac caaggtaact ggcttggagg
     4861 agcacagcca ccaaatctgt cctttcagtt tagccttaac cggcgcataa cttcaagact
     4921 aactcctcta aacggttacc aatggctgct gccagtggcg tttttacgtg tctttccggg
     4981 ttggactcaa gacgatagtt accggataag gcgcagcggt cgggctgaac ggggggttcg
     5041 tgcacacagc ccagcttgga gcgaacgacc tacaccgggc cgagatacca acagcgtgag
     5101 ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg acaggtatcc ggtaagcggc
     5161 agggtcggaa caggagagcg cacgagggag cttccagggg gaaacgcctg gtatctttat
     5221 agtcctgtcg ggtttcgcca cctctgactt gagcgtctgt ttttgtgatg ctcgtcaggg
     5281 gggcggagcc tatggaaaaa cgccagcggc gcggccttct tcctgttcct ggtcttttgc
     5341 tcacatgttt cttttggcgt tatcccctga ttctgtggat aaccgcatca ccgtctttga
     5401 gtgagctgat a
//
