LOCUS       CP063730                1983 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18MD05VL07 005213EC plasmid pVPS18EC0676-6,
            complete sequence.
ACCESSION   CP063730
VERSION     CP063730.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533952
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1983)
  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 1983)
  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..1983
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18MD05VL07 005213EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0676-6"
                     /geo_loc_name="USA:MD"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            complement(223..654)
                     /locus_tag="IO773_25280"
     CDS             complement(223..654)
                     /locus_tag="IO773_25280"
                     /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="QOX35314.1"
                     /translation="MSAHFVRFPDCQFVDRAEQLWHENGRMICCPVARTARLRGGRRGA
                     KNCRHCASVPVTQTRRNRDRMWECRTAHARSDIPHLVRASPRHPANASRHAKKFRVPLT
                     VLELVKQKIAGPRASGVGSDFVIDDGTGKTLGMVVGVTE"
                     /name="hypothetical protein"
     gene            complement(808..1797)
                     /locus_tag="IO773_25285"
     CDS             complement(808..1797)
                     /locus_tag="IO773_25285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="QOX35315.1"
                     /translation="MKNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYNPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(388..466)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="80.0"
                     /evalue="8.21e-29"
     Typing          729..807
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.25"
                     /coverage="80.0"
                     /evalue="8.21e-29"
     Typing          891..1082
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.83e-96"
ORIGIN
        1 tgtgccctca agccttgcgg gacaagggct ggaggccaat ttgaatccta gagttatccc
       61 ttaagtataa atacaaggat cgcgcgcgag atttgcttga attttgagct ggattttcag
      121 caacccaaaa cctcccaacc ccacccactt acacccatct catccacaga ctttcacccc
      181 aattttgtga acaacaaaaa accgtcttgc aggtggttgg cctcactccg tgacaccaac
      241 caccataccc agcgttttcc ccgtgccgtc gtcaatcaca aaatcggaac ccacgccgga
      301 ggcgcggggc cccgcgattt tctgtttgac gagttcaaga acggtgagcg gtacgcggaa
      361 ttttttcgcg tgccgtgagg cgttggcggg gtgtcggggc gaagccctga ccaggtgggg
      421 aatgtctgag cgagcgtgcg cggtccgaca ttcccacatc ctgtcccgat ttctgcgggt
      481 ttgtgtcacc ggaacactgg cgcaatgtcg gcagtttttt gcgccgcgcc gccctccacg
      541 taagcgcgca gttctggcaa ccggacagca aatcattctg ccgttttcgt gccacagctg
      601 ttccgcgcga tcgacaaact ggcagtcggg gaatctcacg aagtgcgcac tcatacaaac
      661 tacacttcgt ttcgtttgtt gtgcggtctg cgacgctcaa aaaaccgaga aacggcggga
      721 attttcggga caggatgtgg gaatgtcgga ccgcgcacgc tcgctcagac attccccacc
      781 tggtcagggc ttcgccccga caccccgcta gcctgattca gttttatctt tcgtcggtga
      841 gcgacggtac tttctgacct cggttttcca ctcgaacgcg atgcgtgaac cgtcatcgtc
      901 gccctcggaa atatcatccc cgatcaccat gtcggcgtcg gtttcctgat cgagtttcag
      961 cacgtctttg agtgcgccgc cggtcgccac aaagcggcgc ttgtgcgtct ggcgggtcag
     1021 ttcgaggaac cattcaggat cggccaccat gtcagccggc ttcgtggaat atttcagggt
     1081 ttcggccact gcgccgcgca ccagttcagc ggtcgcgcag gctaaggact cgccatcctt
     1141 tggcttacgg ggttttactg cccggacatc aacattcggg ttgtaactga cccgcaggca
     1201 ctcccgccag agttcaaccc agcgagcatg ttttacgtac ccgtcaccag atagcattga
     1261 gggcggcacc atcatcaggg tgtggaagtg gggatgcgcg ctgccgtcgc tgccgcgggt
     1321 aacttccgtt gtgcggatcc agccctgaac aggcaggaac tccttgcgaa ccttcatacg
     1381 ctgaaaagct gcattcatcc ggttcagcat ctcgcccagt tccccaatcg cacagttgcg
     1441 cacggtcagg gtcaggaaca tccagcgggc atcagggtaa tccgccacga tacgcggcag
     1501 ggactggtag aaacgggctt gccacatcag ggagcgcctc cactggcaga caggacagtg
     1561 ccggacacgg cagaaatgcg cctcacgcag cctcagacgc gtttctccgg tttccttgag
     1621 ggtagaccac ccgaaacgca gtaaaccgcc acaggaggcc atacgagccc cgtagcgctc
     1681 atattcggcc gcaagcaggt aaatccctcc cacgtcgtca gaaacgcttc tgtgtgcgtc
     1741 ccagggcgcg tcagaggggg aataatcagt gaggtactgg agtttagggt ttttcatgcg
     1801 caccacccga ttgtgggcga tggctcatct gacgtgttat cattgccata tcacctgtgt
     1861 tgtcgtgtca ctaattcgaa tttctacagg tggtcacgcc cccgaacgat tgccctcgtt
     1921 gcgggggtcg cttttaacgc gaccacttcc gacagaatac ttctaaaccc atttcggagc
     1981 aaa
//
