LOCUS       CP063734                5631 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18SC05VL02-EC plasmid pVPS18EC0505-5,
            complete sequence.
ACCESSION   CP063734
VERSION     CP063734.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533951
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5631)
  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 5631)
  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                   :: 685x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 13:00:15
            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)                     :: 5,435
            CDSs (total)                      :: 5,309
            Genes (coding)                    :: 5,075
            CDSs (with protein)               :: 5,075
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 234
            CDSs (without protein)            :: 234
            Pseudo Genes (ambiguous residues) :: 0 of 234
            Pseudo Genes (frameshifted)       :: 81 of 234
            Pseudo Genes (incomplete)         :: 146 of 234
            Pseudo Genes (internal stop)      :: 46 of 234
            Pseudo Genes (multiple problems)  :: 34 of 234
            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..5631
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18SC05VL02-EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0505-5"
                     /geo_loc_name="USA:SC"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            47..238
                     /locus_tag="IO772_01180"
     CDS             47..238
                     /locus_tag="IO772_01180"
                     /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="QOX35543.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1441..2307)
                     /locus_tag="IO772_01185"
     CDS             complement(1441..2307)
                     /locus_tag="IO772_01185"
                     /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="QOX35544.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(2309..3361)
                     /locus_tag="IO772_01190"
     CDS             complement(2309..3361)
                     /locus_tag="IO772_01190"
                     /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="QOX35545.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(3842..4075)
                     /gene="mbeD"
                     /locus_tag="IO772_01195"
     CDS             complement(3842..4075)
                     /gene="mbeD"
                     /locus_tag="IO772_01195"
                     /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="QOX35540.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(4082..4612)
                     /locus_tag="IO772_01200"
     CDS             complement(4082..4612)
                     /locus_tag="IO772_01200"
                     /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="QOX35541.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(4590..5348)
                     /locus_tag="IO772_01205"
                     /pseudo=""
     CDS             complement(4590..5348)
                     /locus_tag="IO772_01205"
                     /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(5290..5613)
                     /locus_tag="IO772_01210"
     CDS             complement(5290..5613)
                     /locus_tag="IO772_01210"
                     /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="QOX35542.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(333..414)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(871..1058)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(3739..5300)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tatcattacc cccatgaaca gaaccccccc ttacacggag gcatcagtga ccaaacagga
       61 aaaaaccgcc cttaacatgg cccgcttcat cagaggccag acattaacgc tgctggagaa
      121 gctcaacgaa ctggacgcgg atgaacaggc agacatctgt gaatcgcttc acgaccacgc
      181 cgatgagctt taccgcagtt gcctcgcacg cttcggggat gacggtgaaa accgctgaca
      241 catgcagctc ccggagacgg tcacagcttg tctgtgagcg gatgccggga gcagacaagc
      301 ccgccagggc gcgtcaggcc gttgaccttt ggggtgtcgg ggcgaagccc tgacccagtc
      361 acgtagcgat agcggagtgt atactggctt aaccattcgg catcagtgcg gattgtatga
      421 aaagtgcgcc atgtccggtg tgaaatgccg cacagatgcg taaggagaaa atgccagttc
      481 aggcgctctt ccgcttcctc gctcactgac tcgctacgct cggtcgttcg gctgcggcga
      541 gcggactctc ctttctcaaa aacgctaacc ctgttatcca cagaacccgg ggataaacca
      601 ggaaagaaca tgtgcgcaaa aaacgaaacc ccgggaaagg ccgcgccgga ggcgcttttt
      661 ccataggctc cgcccccctg acggacttca caaaacagac actttttcgg tgcatctgtg
      721 ggagccttgc ggctcaacca tgaaatccgc cagcggtggc gaaacccgac gtggcttaaa
      781 gatcatcacc gtttccggtg aatcgctccc tcctgcgccc ccacgttccc gccatatcga
      841 ttaccggata ccttttccgc ctttctccct tacgggacac gtggcgcttt ctcatagctc
      901 acgtcttctg gtatctcggg gcgacttagg cagttcgctc cgggctgggc tgtatgcagg
      961 aaccccccgt tcagcccgac tgctgcgcct tctccggtaa ctgttctctt gggtccaacc
     1021 cggaaaagac accacaaagc gccactggca gcagccattg gtaaaagtca tgtgcgagat
     1081 atttagagag tacttgaagt ggctgccgga gtgcggctac actagaagaa caattttggt
     1141 gactcgtctc gcataagaca gttacctggt taagcagtct gcaagctgac ttaaccttcg
     1201 atcaaaccgc cctgcaaggc ggttttttcg tttacaggca gcagattacg cgcagaaaaa
     1261 aaggatctca agaggatcct ttgatctttt tgttacaaac gtctctattt gactcccctg
     1321 agagcgtttt agcgcgcctc tgaccccctt ggttacattc cgacaccaga aacgctcccg
     1381 ttttttacgt gcatttggca cggtatcgat ggaggccggg gggcaatcct gaacagaatg
     1441 ttactcctct gagtattttc tgttaagaaa atatacactt agcacagtta caataaatcc
     1501 taccccctgt aagaatgtga attgttcatc caaaaacaac catgacaaaa ataatgcaac
     1561 tagcggaata aagtacaaca ttatccctgc caaatgaact gggagccaac gcaaggagtt
     1621 caagtaaaaa caaaaagcta aaaaatattg taatattcca gatgaaaaaa caataatcac
     1681 ggattccaac ggaagataaa ttgatgattt agatataaaa ataaagagcg atgacagtat
     1741 aagggagaat gtcaactgtc cgctcaataa tgtgataggc tcaaacgatt taataaggcg
     1801 agacgatata acaacataaa atgctgccga taacacaccg gcaacaacaa gacaatatcc
     1861 aacaatatta ttcgatccat tactgatgtc tggcaaggct accaaaatac tgccaacaat
     1921 tgcacctata aggaacaata taaaatattg cggggaatta attttaactg agcaaataag
     1981 aacagacaac accaatataa acactgattc aagtgaaaaa ataattgatg cgcttcctgc
     2041 tgaaataaaa taaagtccgt agagtgtaaa agtatacgct aagaatggtt caaaaacgcc
     2101 tgtcgcataa gcaagtatcg cttttgagtt taatgggagt ttttttcttt ttataaaaag
     2161 aactatccaa gatagtatta ctgcactaca aatctgccag aaaaacaccc ctccggcatc
     2221 tagttcttca actccttttt tgctcattac gatagctgcc ccccatgaga acgctgctaa
     2281 aaaagcaaaa agcattcctt taatcatatt aatcatcctc tttctcataa aggggtttgt
     2341 tttcaaattt ccttggttga aaggagttaa aaaacataga tgcatcatct acaggaatac
     2401 caataaactc tccataataa ggatcatcta taggaaactc ttctaatgaa acataaaaca
     2461 atacattcca gttgaagatc attggatcac tattttctat ttcatggagc aatctttcat
     2521 ccttagttaa ttctcctgga attaatacat cagtatgata aaaaccgctg taataagaac
     2581 tattaccggt gtgcactggg catccaaaac gatccaaatt agattctgaa tgccatgttg
     2641 tagaaatccc ttccggatgt gaatacccac ccttaccaac agactgaata gtcatgttac
     2701 gaatatccgc taacgcttgt tcttgatctt tatagaaacc tttttctatc gccagcctca
     2761 taaaatgccc cggggcattt acagaaataa gtattccccc tggtattctt ctatcatgat
     2821 ttcttgttct atgagcagaa gagtaaaaaa cattaacacc agccttatat atttttagcc
     2881 catctttatc ctgaaatggt acgctttcag tataaataac atcctctttt attggatagc
     2941 actctggcat atgcagcgaa caaatatatt tttgtatgtc cactaactct tctgatggac
     3001 gagcaaaggc aagttgtgga tgaataaaat aaatgagatg cgcactgacc tctcctcttc
     3061 ttgcgcgttc tttaaaacga actctttcat tacgcaaaaa atcaaacaaa tgaccatcat
     3121 cattatatag ttgggggcta tttacaatag ataaatggaa atcaagccct ttaattttct
     3181 tgcttgccaa tttaccaaat acacagggct gattgcctga cacccatttt cttagtaaat
     3241 cttcaatttt atctttagaa gtttcgttaa agataaatga atgaatatta tcaatatctt
     3301 ttccaaatga aaaactggat gataattgtg gtagtttatt tatacgttgt tgaagattca
     3361 tgaaagctcc cacaagacac ctcatatatt tttttatata ctgaaactac attatattta
     3421 ttaccggcgt aaaacgaaat aatttattat cgttaccgat attttaaaaa aatcattatt
     3481 tgcacagtgt tcgagttgtt agtatcactc cttcctgaaa atccgctcca tttaccataa
     3541 cgtcgcattg tacgcaccgc caaaacgcgt tcggtgcgat cacggcagca gacaggtaaa
     3601 aatggcaaca aaccacccga aaaactgccg cgatcgcacc tgataaattt taaccgcatg
     3661 aatacctatg caaccagatg ctacaggcca cattagcccg ccttaatcca ctgaacacgt
     3721 catttttcat ggtttcacca tcccagcgaa gggccatcca gtgtccgctc ctggatttcc
     3781 ggctgacgct cccgctccag agataactca tgttcgcgtt cctgcatcag ccgttcatcc
     3841 cttatctcct gttctcgctg tataactggc tcaagcgttc tgtccgctcg ctcaagtgct
     3901 gcacctgctg actcaactgc atgactcgcc cgttcagcat cgcgttgtcc cgttgcgtaa
     3961 gcgaaaacat tttctgcaat tccacgaagg cgttctccca ttcgttcagc cgctgcatat
     4021 agtcctgttg cagttgctct aatgcgttca gcaaatgtct ttccagctcc gtcatgctct
     4081 gtcactcctg caccagtctc actgcgttca gtttgccgtt gtccttcgtc cagttcgttt
     4141 cggctttcat ccccttcggc aacaccagaa aacgtccgtt gctgtcctcg tgataacgca
     4201 cgccccatgt cttcgcgttc agcttctcca gactctcttt ctgctcgcgg agaatattca
     4261 tattcgcgtt tatcttcatg ccctggtacc acagcagact cccggtcgtg gcaaacatca
     4321 gtactgagac gataatcagc cacagccagc gtttcacgct cattttcagt acggttttcc
     4381 agtgcgcgtc catcgtatcg acggtcgttt tctgatacct ctccagcagt tctttcaggg
     4441 ctgttgtatg gtcgttgata gcgttcctga ttaaagattc gtttgaggtc agttccctgt
     4501 ttacagattc ttcgagcttc ctgaactcgt cgttcagcat tttctctgta gattcggctc
     4561 tctctttcag ctttttctcg aactccgcgc ccgtctgtaa aagattgctc ataaaacgct
     4621 cctttcagtc tgatattcct cccgccgttc gggtctgcaa tgctgatact gcttcgcgtc
     4681 accctgacca cttcaagccc cgcctctgtg agcgcctgaa tcacatcctg acggcctttt
     4741 atctctccgg catggtaaag cgcgtctatc ccgcgtgtga cgccctcagc aagcgcctgt
     4801 ttcgtttccg gcaggttatc aggaagggtc agcgtccggc ggttctccgg ggcgttgggg
     4861 tcatgcagac cgtaatggtg attcaccagc gtctgccagg catcaattct cggcctgtct
     4921 gcccggtcgt agtacggctg gaggcgtttt ccggtctgta gctccatgtt cggaatgaca
     4981 aaattcagct caagccgtcc cttgtcctgg tgctccaccc acaggatgct gtactgattt
     5041 ttctcgagac cgggcatcag tacacgctca aagctcgcca tcactttttc acgccctcca
     5101 ggcggcagct ccttctccgc gaacgacaga acacctgacg tgtatttctt cgcaaatggc
     5161 gtggcatcga tgagttcccg gacctcttcc ggattcccct gaagcaccgt tgccccttcc
     5221 cggttacgct cccttcccag caggtaatca accggaccac tgccaccacc ttttcccctg
     5281 gcatgaaact taactatcat cccgcgcccc ctgttccctg accgccagac gcagccggcg
     5341 cagctcatcc ccgatggcca tcagtgcggc caccacctga acccggtcac cggaagacca
     5401 ctgcccgctg ttcaccttcc tcgctgtctg gttaaggtta ttcccgatgg cggccagctg
     5461 acgcagtaac ggcggtgcca gtgtcggcag cttcccggaa cgggcaaccg gctcacccag
     5521 gcagacccgc cgcatccata ccgccagttg tttaccctca cagcgttcca gtaaccgggc
     5581 atgttcatca tcagtaaccc gtatcgtgag catcctctcg cgtttcatcg g
//
