LOCUS       CP063723                5630 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18MD05VL07 005213EC plasmid pVPS18EC0676-3,
            complete sequence.
ACCESSION   CP063723
VERSION     CP063723.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533952
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5630)
  AUTHORS   Tate,H., Li,C., Nyirabahizi,E., Tyson,G.H., Zhao,S.,
            Rice-Trujillo,C., Jones,S.B., Ayers,S., M'ikanatha,N.M., Hanna,S.,
            Ruesch,L., Cavanaugh,M.E., Laksanalamai,P., Mingle,L.,
            Matzinger,S.R. and McDermott,P.F.
  TITLE     A National Antimicrobial Resistance Monitoring System Survey of
            Antimicrobial-Resistant Foodborne Bacteria Isolated from Retail Veal
            in the United States
  JOURNAL   J Food Prot 84 (10), 1749-1759 (2021)
   PUBMED   34015113
REFERENCE   2  (bases 1 to 5630)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-OCT-2020) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: JUN-2020
            Assembly Method                   :: HGAP v. 4
            Assembly Name                     :: Microbial Assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 457x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 13:20:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.13
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,057
            CDSs (total)                      :: 4,934
            Genes (coding)                    :: 4,826
            CDSs (with protein)               :: 4,826
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 43 of 108
            Pseudo Genes (incomplete)         :: 68 of 108
            Pseudo Genes (internal stop)      :: 23 of 108
            Pseudo Genes (multiple problems)  :: 23 of 108
            CRISPR Arrays                     :: 1
            ##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..5630
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18MD05VL07 005213EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0676-3"
                     /geo_loc_name="USA:MD"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            complement(1111..1977)
                     /locus_tag="IO773_00005"
     CDS             complement(1111..1977)
                     /locus_tag="IO773_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="QOX30493.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(1979..3031)
                     /locus_tag="IO773_00010"
     CDS             complement(1979..3031)
                     /locus_tag="IO773_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QOX30494.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(3511..3744)
                     /gene="mbeD"
                     /locus_tag="IO773_00015"
     CDS             complement(3511..3744)
                     /gene="mbeD"
                     /locus_tag="IO773_00015"
                     /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="QOX30490.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(3751..4281)
                     /locus_tag="IO773_00020"
     CDS             complement(3751..4281)
                     /locus_tag="IO773_00020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /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="QOX30491.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(4259..5017)
                     /locus_tag="IO773_00025"
                     /pseudo=""
     CDS             complement(4259..5017)
                     /locus_tag="IO773_00025"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /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            complement(4959..5282)
                     /locus_tag="IO773_00030"
     CDS             complement(4959..5282)
                     /locus_tag="IO773_00030"
                     /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="QOX30495.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            5347..5538
                     /locus_tag="IO773_00035"
     CDS             5347..5538
                     /locus_tag="IO773_00035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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="QOX30492.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3..84)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(541..728)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(3408..4969)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggggtgtcgg ggcgaagccc tgacccagtc acgtagcgat agcggagtgt atactggctt
       61 aaccattcgg catcagtgcg gattgtatga aaagtgcgcc atgtccggtg tgaaatgccg
      121 cacagatgcg taaggagaaa atgccagttc aggcgctctt ccgcttcctc gctcactgac
      181 tcgctacgct cggtcgttcg gctgcggcga gcggactctc ctttctcaaa aacgctaacc
      241 ctgttatcca cagaacccgg ggataaacca ggaaagaaca tgtgcgcaaa aaacgaaacc
      301 ccggtaaagg ccgcgccgga ggcgcttttt ccataggctc cgcccccctg acggacttca
      361 caaaacagac actttttcgg tgcatctgtg ggagccttgc ggctcaacca tgaaatccgc
      421 cagcggtggc gaaacccgac gtggcttaaa gatcatcacc gtttccggtg aatcgctccc
      481 tcctgcgccc ccacgttccc gccatatcga ttaccggata ccttttccgc ctttctccct
      541 tacgggacac gtggcgcttt ctcatagctc acgtcttctg gtatctcggg gcgacttagg
      601 cagttcgctc cgggctgggc tgtatgcagg aaccccccgt tcagcccgac tgctgcgcct
      661 tctccggtaa ctgttctctt gggtccaacc cggaaaagac accacaaagc gccactggca
      721 gcagccattg gtaaaagtca tgtgcgagat atttagagag tacttgaagt ggctgccgga
      781 gtgcggctac actagaagaa caattttggt gactcgtctc gcataagaca gttacctggt
      841 taagcagtct gcaagctgac ttaaccttcg atcaaaccgc cctgcaaggc ggttttttcg
      901 tttacaggca gcagattacg cgcagaaaaa aaggatctca agaggatcct ttgatctttt
      961 tgttacaaac gtctctattt gactcccctg agagcgtttt agcgcgcctc tgaccccctt
     1021 ggttacattc cgacaccaga aacgctcccg ttttttacgt gcatttggca cggtatcgat
     1081 ggaggccggg gggcaatcct gaacagaatg ttactcctct gagtattttc tgttaagaaa
     1141 atatacactt agcacagtta caataaatcc taccccctgt aagaatgtga attgttcatc
     1201 caaaaacaac catgacaaaa ataatgcaac tagcggaata aagtacaaca ttatccctgc
     1261 caaatgaact gggagccaac gcaaggagtt caagtaaaaa caaaaagcta aaaaatattg
     1321 taatattcca gatgaaaaaa caataatcac ggattccaac ggaagataaa ttgatgattt
     1381 agatataaaa ataaagagcg atgacagtat aagggagaat gtcaactgtc cgctcaataa
     1441 tgtgataggc tcaaacgatt taataaggcg agacgatata acaacataaa atgctgccga
     1501 taacacaccg gcaacaacaa gacaatatcc aacaatatta ttcgatccat tactgatgtc
     1561 tggcaaggct accaaaatac tgccaacaat tgcacctata aggaacaata taaaatattg
     1621 cggggaatta attttaactg agcaaataag aacagacaac accaatataa acactgattc
     1681 aagtgaaaaa ataattgatg cgcttcctgc tgaaataaaa taaagtccgt agagtgtaaa
     1741 agtatacgct aagaatggtt caaaaacgcc tgtcgcataa gcaagtatcg cttttgagtt
     1801 taatgggagt ttttttcttt ttataaaaag aactatccaa gatagtatta ctgcactaca
     1861 aatctgccag aaaaacaccc ctccggcatc tagttcttca actccttttt tgctcattac
     1921 gatagctgcc ccccatgaga acgctgctaa aaaagcaaaa agcattcctt taatcatatt
     1981 aatcatcctc tttctcataa aggggtttgt tttcaaattt ccttggttga aaggagttaa
     2041 aaaacataga tgcatcatct acaggaatac caataaactc tccataataa ggatcatcta
     2101 taggaaactc ttctaatgaa acataaaaca atacattcca gttgaagatc attggatcac
     2161 tattttctat ttcatggagc aatctttcat ccttagttaa ttctcctgga attaatacat
     2221 cagtatgata aaaaccgctg taataagaac tattaccggt gtgcactggg catccaaaac
     2281 gatccaaatt agattctgaa tgccatgttg tagaaatccc ttccggatgt gaatacccac
     2341 ccttaccaac agactgaata gtcatgttac gaatatccgc taacgcttgt tcttgatctt
     2401 tatagaaacc tttttctatc gccagcctca taaaatgccc cggggcattt acagaaataa
     2461 gtattccccc tggtattctt ctatcatgat ttcttgttct atgagcagaa gagtaaaaaa
     2521 cattaacacc agccttatat atttttagcc catctttatc ctgaaatggt acgctttcag
     2581 tataaataac atcctctttt attggatagc actctggcat atgcagcgaa caaatatatt
     2641 tttgtatgtc cactaactct tctgatggac gagcaaaggc aagttgtgga tgaataaaat
     2701 aaatgagatg cgcactgacc tctcctcttc ttgcgcgttc tttaaaacga actctttcat
     2761 tacgcaaaaa atcaaacaaa tgaccatcat cattatatag ttgggggcta tttacaatag
     2821 ataaatggaa atcaagccct ttaattttct tgcttgccaa tttaccaaat acacagggct
     2881 gattgcctga cacccatttt cttagtaaat cttcaatttt atctttagaa gtttcgttaa
     2941 agataaatga atgaatatta tcaatatctt ttccaaatga aaaactggat gataattgtg
     3001 gtagtttatt tatacgttgt tgaagattca tgaaagctcc cacaagacac ctcatatatt
     3061 ttttatatac tgaaactaca ttatatttat taccggcgta aaacgaaata atttattatc
     3121 gttaccgata ttttaaaaaa atcattattt gcacagtgtt cgagttgtta gtatcactcc
     3181 ttcctgaaaa tccgctccat ttaccataac gtcgcattgt acgcaccgcc aaaacgcgtt
     3241 cggtgcgatc acggcagcag acaggtaaaa atggcaacaa accacccgaa aaactgccgc
     3301 gatcgcacct gataaatttt aaccgcatga atacctatgc aaccagatgc tacaggccac
     3361 attagcccgc cttaatccac tgaacacgtc atttttcatg gtttcaccat cccagcgaag
     3421 ggccatccag tgtccgctcc tggatttccg gctgacgctc ccgctccaga gataactcat
     3481 gttcgcgttc ctgcatcagc cgttcatccc ttatctcctg ttctcgctgt ataactggct
     3541 caagcgttct gtccgctcgc tcaagtgctg cacctgctga ctcaactgca tgactcgccc
     3601 gttcagcatc gcgttgtccc gttgcgtaag cgaaaacatt ttctgcaatt ccacgaaggc
     3661 gttctcccat tcgttcagcc gctgcatata gtcctgttgc agttgctcta atgcgttcag
     3721 caaatgtctt tccagctccg tcatgctctg tcactcctgc accagtctca ctgcgttcag
     3781 tttgccgttg tccttcgtcc agttcgtttc ggctttcatc cccttcggca acaccagaaa
     3841 acgtccgttg ctgtcctcgt gataacgcac gccccatgtc ttcgcgttca gcttctccag
     3901 actctctttc tgctcgcgga gaatattcat attcgcgttt atcttcatgc cctggtacca
     3961 cagcagactc ccggtcgtgg caaacatcag tactgagacg ataatcagcc acagccagcg
     4021 tttcacgctc attttcagta cggttttcca gtgcgcgtcc atcgtatcga cggtcgtttt
     4081 ctgatacctc tccagcagtt ctttcagggc tgttgtatgg tcgttgatag cgttcctgat
     4141 taaagattcg tttgaggtca gttccctgtt tacagattct tcgagcttcc tgaactcgtc
     4201 gttcagcatt ttctctgtag attcggctct ctctttcagc tttttctcga actccgcgcc
     4261 cgtctgtaaa agattgctca taaaacgctc ctttcagtct gatattcctc ccgccgttcg
     4321 ggtctgcaat gctgatactg cttcgcgtca ccctgaccac ttcaagcccc gcctctgtga
     4381 gcgcctgaat cacatcctga cggcctttta tctctccggc atggtaaagc gcgtctatcc
     4441 cgcgtgtgac gccctcagca agcgcctgtt tcgtttccgg caggttatca ggaagggtca
     4501 gcgtccggcg gttctccggg gcgttggggt catgcagacc gtaatggtga ttcaccagcg
     4561 tctgccaggc atcaattctc ggcctgtctg cccggtcgta gtacggctgg aggcgttttc
     4621 cggtctgtag ctccatgttc ggaatgacaa aattcagctc aagccgtccc ttgtcctggt
     4681 gctccaccca caggatgctg tactgatttt tctcgagacc gggcatcagt acacgctcaa
     4741 agctcgccat cactttttca cgccctccag gcggcagctc cttctccgcg aacgacagaa
     4801 cacctgacgt gtatttcttc gcaaatggcg tggcatcgat gagttcccgg acctcttccg
     4861 gattcccctg aagcaccgtt gccccttccc ggttacgctc ccttcccagc aggtaatcaa
     4921 ccggaccact gccaccacct tttcccctgg catgaaactt aactatcatc ccgcgccccc
     4981 tgttccctga ccgccagacg cagccggcgc agctcatccc cgatggccat cagtgcggcc
     5041 accacctgaa cccggtcacc ggaagaccac tgcccgctgt tcaccttcct cgctgtctgg
     5101 ttaaggttat tcccgatggc ggccagctga cgcagtaacg gcggtgccag tgtcggcagc
     5161 ttcccggaac gggcaaccgg ctcacccagg cagacccgcc gcatccatac cgccagttgt
     5221 ttaccctcac agcgttccag taaccgggca tgttcatcat cagtaacccg tatcgtgagc
     5281 atcctctcgc gtttcatcgg tatcattacc cccatgaaca gaaccccccc ttacacggag
     5341 gcatcagtga ccaaacagga aaaaaccgcc cttaacatgg cccgcttcat cagaggccag
     5401 acattaacgc tgctggagaa gctcaacgaa ctggacgcgg atgaacaggc agacatctgt
     5461 gaatcgcttc acgaccacgc cgatgagctt taccgcagtt gcctcgcacg cttcggggat
     5521 gacggtgaaa accgctgaca catgcagctc ccggagacgg tcacagcttg tctgtgagcg
     5581 gatgccggga gcagacaagc ccgccagggc gcgtcaggcc gttgaccttt
//
