LOCUS       CP063743                5430 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18SC04V02-EC plasmid pVPS18EC0466-2,
            complete sequence.
ACCESSION   CP063743
VERSION     CP063743.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533949
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5430)
  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 5430)
  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                   :: 654x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 10/27/2020 12:55:30
            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)                     :: 4,684
            CDSs (total)                      :: 4,567
            Genes (coding)                    :: 4,418
            CDSs (with protein)               :: 4,418
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 149
            CDSs (without protein)            :: 149
            Pseudo Genes (ambiguous residues) :: 0 of 149
            Pseudo Genes (frameshifted)       :: 53 of 149
            Pseudo Genes (incomplete)         :: 86 of 149
            Pseudo Genes (internal stop)      :: 43 of 149
            Pseudo Genes (multiple problems)  :: 30 of 149
            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..5430
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18SC04V02-EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0466-2"
                     /geo_loc_name="USA:SC"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            667..1128
                     /locus_tag="IO770_23355"
     CDS             667..1128
                     /locus_tag="IO770_23355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000043122.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QOX49738.1"
                     /translation="MSKQDYIQLRTLTDQFYADNKGLQEALDGSNDGKVRGYGIVVIDL
                     NGLVFGIPLRSHLNHKFGFVSERSEGVKKGLDYTKALLIKKEEYVSRAYKIPTPEFTHI
                     NDNKEKIQEDFNKFVNRYIEANVKKDENILRNYRYSTLKNYHKELGLED"
                     /name="hypothetical protein"
     gene            complement(1157..1720)
                     /locus_tag="IO770_23360"
     CDS             complement(1157..1720)
                     /locus_tag="IO770_23360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015959180.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QOX49736.1"
                     /translation="MHALSILPSVARANLATKFSSHLKVIELFNTMQDSQVVVLSSLIE
                     GHHLTSSGNSVKADFEVTRLPAIIEMLEKKYFFPIRHLNVSVKSVTTGRMTGQTVYFIE
                     PEHIEQLLADPELVFANQERSLFFRSLEKEGKNLGKLIEKKGSVSQAVLSLLHHAYKDK
                     PLSDEMWKEIEDKFTHMLDELSAA"
                     /name="hypothetical protein"
     gene            complement(1978..2388)
                     /locus_tag="IO770_23365"
     CDS             complement(1978..2388)
                     /locus_tag="IO770_23365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000874179.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QOX49737.1"
                     /translation="MAFISLSNLAAKTGRIIQSQCVTATQTKKSTGAVELGFRLSKSAM
                     DETGITIGDRVDILYDKEENQWMIKKISEGGFGVSGQKNKHGGYSSCAVRLTLRPGFPR
                     LSEDEEDNKKLLSDDSFTQLSEGVIVFRLDDE"
                     /name="hypothetical protein"
     gene            complement(3210..3422)
                     /gene="mbeD"
                     /locus_tag="IO770_23370"
     CDS             complement(3210..3422)
                     /gene="mbeD"
                     /locus_tag="IO770_23370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /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="QOX49733.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="mbeD"
     gene            complement(3426..3911)
                     /locus_tag="IO770_23375"
     CDS             complement(3426..3911)
                     /locus_tag="IO770_23375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /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="QOX49734.1"
                     /translation="MSSLLALAKDLEKQSKAQQQNTCEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIATSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEQKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            complement(3886..4626)
                     /locus_tag="IO770_23380"
                     /pseudo=""
     CDS             complement(3886..4626)
                     /locus_tag="IO770_23380"
                     /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(4589..4909)
                     /locus_tag="IO770_23385"
     CDS             complement(4589..4909)
                     /locus_tag="IO770_23385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="QOX49735.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNTGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGND
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(5018..5197)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.339"
                     /coverage="83.0"
                     /evalue="7.539999999999999e-48"
     Typing          2..401
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.071"
                     /coverage="91.0"
                     /evalue="3.0300000000000004e-110"
     Typing          5286..5430
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.151"
                     /coverage="86.0"
                     /evalue="1.59e-52"
     Typing          complement(3095..4599)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.625"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctctcctgtt cctgcctttc ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc
       61 tcattccacg cctgacactc agttccgggt aggcagttcg ctccaagctg gactgtatgc
      121 acgaaccccc cgttcagtcc gaccgctgcg ccttttccgg taactatcga cttgagtcca
      181 acccggaaag acacgactaa tcgccattgg caacggccac tggtaaacat gatgtgcgag
      241 agatgtattg agagttcttg aagtggtggc cttactgagg ctacactgga aggacggatt
      301 tggtgacacg tctcgcacaa gactgttacc acggttagat aatctgccag gattaaataa
      361 ccttcgaaaa accacctgcc agggtggttt tttcgtttca ggagaagatt acgctggcaa
      421 agtaagtcca gtcaagaaca gctacgaaat tgacttcaca tataattttt gatataagta
      481 aatctagaag tggcggtagg aatgagcccc acgttaaaca aacaagcttc caaagaaaga
      541 tgtgcggtag agttcgccac acgtaaaaaa tccaagactc aacgaaagaa aagcaaagcc
      601 ctctcttaca gagggctttg ctttttttgt acattggtta caggaaaatg ccaatggaca
      661 tcaaaaatga gcaaacagga ttacatacag ttaagaaccc ttacagacca gttttatgct
      721 gataacaaag gcctacaaga ggctctcgac ggcagtaatg atggaaaagt aagaggctac
      781 ggaatcgtag ttattgatct caacggattg gtgttcggga tacccttacg aagccattta
      841 aaccataaat ttggattcgt ttcggagcga tcagaaggtg ttaagaaagg actggattac
      901 accaaagcgt tgctaattaa gaaagaagag tatgtatcgc gagcctataa gataccaact
      961 cctgaattta cccatatcaa tgataacaaa gaaaaaatac aagaagattt caacaaattc
     1021 gtaaacagat acatagaagc gaacgtcaag aaagatgaaa acatactcag aaactatcgt
     1081 tactctacgc tgaaaaacta tcacaaagaa ttaggtttag aagactaaaa aggcggtcta
     1141 acgaccgccc ttgcctttac gccgcgctca attcatccag catatgggtg aacttatctt
     1201 ctatctcctt ccacatctcg tcagaaagag gtttatcttt gtaggcgtga tgtagaaggc
     1261 ttaagacggc ttgagaaaca ctaccttttt tctcgataag cttgccgaga tttttccctt
     1321 ctttttcgag agaacgaaag aagaggctcc tttcctgatt agcaaacaca agctcaggat
     1381 cagcgagaag ttgctcgatg tgttcaggct ctatgaaata gacagtttgt ccagtcatcc
     1441 ttcctgtagt tacagattta acagatacat ttagatgacg aatagggaaa aaatattttt
     1501 tctctaacat ctcgataatc gccggtaagc gagtgacctc aaagtcggct ttgacactgt
     1561 taccagaact ggtgaggtga tggccttcga tcagtgatga caagacaaca acttgggaat
     1621 cctgcatcgt gttgaagagc tcgattacct tcaaatgaga cgagaattta gttgccaggt
     1681 tagcgcgggc aactgaaggt agtattgata aagcgtgcat atgtatagcc tcatatgttt
     1741 ttaaaaacat aaacttaaga gaccaaagcc aatagcatcg cacctatcag aatagaaaat
     1801 gtcgtgttca catccctcaa aagaaacgat tttttcttta ttagaatgca agtttatgaa
     1861 cataatgccg cccataacac tccacccttc caaaggtagt gatgtgttga ccagaaggcg
     1921 gagttagtcg attgtttggc gacgctcact aactctgcct ttcctttttg gtccttccta
     1981 ttcatcatcc agcctgaaga cgattacacc ttcacttagc tgagtgaatg aatcatcgga
     2041 aagtagcttc ttgttgtcct cttcatcctc agaaaggcga ggaaaacctg gtcgcaaggt
     2101 caatctaaca gcacacgatg agtaaccgcc gtgcttgttt ttttgcccag acacaccaaa
     2161 gccaccttca ctaattttct taatcatcca ctggttttct tctttgtcgt aaagaatgtc
     2221 gacacgatcc ccaatggtaa taccagtctc gtccatagcg ctcttgctca agcggaatcc
     2281 cagctcgaca gcgcccgtgc tttttttcgt ttgcgtggcc gtaacacact gcgactggat
     2341 tatccttcca gtcttcgctg ccaagttcga tagagagata aaagccataa tacaatccgt
     2401 tttagacatc gatcagttct tatacggaag tgtacccagg gagcgaggtg actttcaaga
     2461 tcttttgtat tgatttttct agagccgcaa aaaacggcga taagaaacct taaatacaaa
     2521 aacaattgct cgtattgaac ctcgtcaaga tacacatcca gatcgatctt tatgtaagta
     2581 aagggtattt ttctatggtg atttaaagtc gagcaacgtc agcgcatcca aaaaaatcac
     2641 caagtaggtg caagaaagcc gcttatagaa actgattttt atgcctgtat aggttgccga
     2701 tgagatgaat ttaacataag agttcttgcc cgcaccgctt cgggctggtt cggcgcaaat
     2761 acggtgcctg tcgggtgaaa cccctagcaa agcacccggt aaaccgcccc gtttacgcca
     2821 gataaatttc acctggctgc atggttatgc agccaggtga atgacagcag ttttcgcgta
     2881 taaatacggt gtaaagcact aaaaaggcca ctttcccccg aatcgctccc acagatccat
     2941 tgccagtttg acgcattgca gtatcagact gagcgctttt agtatcttca taaatccccc
     3001 tctcttgagc cgtgatcttt tcatcacgac cgtatttagc gggaaattta tgagcccttc
     3061 ttcttggggt ttgtcactgg atgcgcgcag tcagcccagc gtcggaccgt tatagctccg
     3121 ctgacggaaa cggggttctg ccagctcttt ttcatgctgt cgctgctcgt atgcccgttc
     3181 ggcggccacc gccatttcat gccgctgcac tactggctca aacgctgtaa ctgcctgctc
     3241 aagttcgcca cctgctgact caagcgcgtg acgcgctcgt tcagcgccgc gttctcccgt
     3301 tgcataagac cagacatctt ctgccattcc gcgaaggcgc tctcccactc gtccagcctt
     3361 tgcgagtagt cctgatgtag ctgctctaat gcggtcagca actgtttttc cagttccgtc
     3421 atgggctatt tcctctccag taccatccag ttcccttcct ccccgtaagc tcccgctttc
     3481 gggttcactt tgacgcagga cagtttctgt tccccacaga gcgacagctg cacgccgtgg
     3541 ttcttctccg acagcatggc ctgcgtccgc tcctgcgccc ggatagtctg gtaattcccg
     3601 gtgatctgct gcccctgcca ccacagaatg ctcccgctcg tggcgatcag cagtactgag
     3661 accagggtga tggtcagcca cgtccggcca accatacgca gcacgctcag ccggttcgac
     3721 tgcatcgccg cggtcatacc ctgctcgtgg gcgctgatgg cgtcgctgat tctcttcgcg
     3781 cttgcgctca gttccgcttt tacagacttc tcgtgctcgc tgaatgcggc tttcagcatc
     3841 tcgcaggtat tctgctgctg cgctttcgat tgcttttcca agtccttcgc cagcgctaaa
     3901 agactgctca taaatggctc ccttcagtcg gatgtttcgc cccccgtccg ggtcggcaat
     3961 gctgatactg ttctttgtgg tgcggaccac ctcaaaacct gccgcagtga gcgcccctgt
     4021 gacgtcctcg cgcgttttga gcgccccgga tgaggctaag gccagcaaac cccgtgtaat
     4081 cgcctgagcg gcttccagct tcgtttccgg cagtgcggac ggcgtgacca gtaacctccg
     4141 gttcttcggg gcgtttggat catgcagccc cagtctgccg ttcaccacgg tctgccaggc
     4201 atcgatgcgc ggccggtcgg cgcgatcgta atacggctgc aggcgtttcc cggtcagcag
     4261 ctctgtgttg gggatcagga aattcagctc cagccgcccc ttgtcggtgt gctccaccca
     4321 cagaatgctg tactggtctt tatcgagccc gggcatcaga acccgctcaa agctggccat
     4381 gatctgctcc cgctgcccgg gcggcagctc agcctccgcg aacgacagta cgccggaggt
     4441 gtactttttc gcatacggcg aggcatcgat aagctcccgg acttcctccg gctttccctg
     4501 cagcacggtc gccccctcgc gctgccggtc ttttcccagc aggtaatcca ccggaccggc
     4561 accaccaccg cgcccccggg gatggaattt aacgatcatc attcccccct ttttccagca
     4621 ccgcatgccg cagccgctcc agtcccgcgt cgattgccat cagggcggcc acgatctgca
     4681 cccggtcatg accggcacca ccggtattca ctttccgggc gatctggttc aggttattac
     4741 ccataccggc aagctggcgc agcagcgccg gcgatatcga cggcagtctg ccggcacgcg
     4801 ccggcttctc atcgaggcag gtctgacgca tccacgccgc cagctgcttg ccgtcgcacc
     4861 gctcgagcag ccgccggtgt tcgtcttccg tcacccacat cgtgagcatc ttgttgcgtt
     4921 tgtctgccag agtagcctcc tgataacacc gggacgggcg ggaaatgttt cccggtcggc
     4981 acggtgttgg acaagccgca ggcgcgtcag tggcttttag cgggtttcgg ggcgcagccc
     5041 tgaaccagtc acgtagcgct agcggagtgt atactggctt aatatgttac ggcggagtaa
     5101 cactttataa aagtgcttca tgtggcaggg gaaaatgcag ctgcagggcg tacgggagaa
     5161 catggaggtt gcggtgatat tacgcctcct cgctcactcg gtcgcttccg ctcctgccgt
     5221 tcggctgcgg cgggcgttac ctgcacacgg ataagagcaa aggcatacgg catgacaaac
     5281 agggcaagaa aaggatgcgg cgctgccgtt tttccatagg ctccgccccc ctgacaagca
     5341 tcacgaaatc tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatacca
     5401 ggcgtttccc cctggtggct ccctcgtgcg
//
