LOCUS       CP063737                4936 bp    DNA     circular BCT 15-OCT-2021
DEFINITION  Escherichia coli strain 18SC05VL02-EC plasmid pVPS18EC0505-6,
            complete sequence.
ACCESSION   CP063737
VERSION     CP063737.1
DBLINK      BioProject: PRJNA292663
            BioSample: SAMN16533951
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4936)
  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 4936)
  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..4936
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="18SC05VL02-EC"
                     /isolation_source="Veal"
                     /db_xref="taxon:562"
                     /plasmid="pVPS18EC0505-6"
                     /geo_loc_name="USA:SC"
                     /collection_date="2018"
                     /collected_by="CVM"
     gene            complement(790..948)
                     /locus_tag="IO772_26430"
     CDS             complement(790..948)
                     /locus_tag="IO772_26430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QOX40260.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHDKAPLAAATGNWTRWIEIL
                     RVLEVVA"
                     /name="replication initiation protein"
     gene            complement(1608..1799)
                     /locus_tag="IO772_26435"
     CDS             complement(1608..1799)
                     /locus_tag="IO772_26435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="QOX40261.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDNGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1864..2187
                     /locus_tag="IO772_26440"
     CDS             1864..2187
                     /locus_tag="IO772_26440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000955993.1"
                     /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="QOX40262.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREQGAR
                     DDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2177..2884
                     /locus_tag="IO772_26445"
                     /pseudo=""
     CDS             2177..2884
                     /locus_tag="IO772_26445"
                     /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            2865..3383
                     /locus_tag="IO772_26450"
     CDS             2865..3383
                     /locus_tag="IO772_26450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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="QOX40256.1"
                     /translation="MSNILQTGAEFEKKLKERAESTEKMLNDEFSRLGESVSEAVTSNE
                     TKIKDAIALFTTSTEESLKKHREGVKEAMMQHRKDMLKLAGSSGMRLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRVQEETLRKLNAKTWGVEFVQGGGRKFLVIPQGMSAEVTHYQ
                     GKDWIQLTE"
                     /name="MbeB family mobilization protein"
     gene            3390..3623
                     /gene="mbeD"
                     /locus_tag="IO772_26455"
     CDS             3390..3623
                     /gene="mbeD"
                     /locus_tag="IO772_26455"
                     /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="QOX40257.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSGQTERLSQLYSENWK"
                     /name="mbeD"
     gene            complement(4234..4530)
                     /locus_tag="IO772_26460"
     CDS             complement(4234..4530)
                     /locus_tag="IO772_26460"
                     /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="QOX40258.1"
                     /translation="MERKHKGKCPFCNSEMAPEVIEKNTIRRDKCKCTTCGEIIYKCRN
                     IFCNDYAKGGLLYDDELCPPCGEGLLKAVKEFPDKYRAAIQKVVEEKNREKNN"
                     /name="hypothetical protein"
     gene            complement(4605..4760)
                     /locus_tag="IO772_26465"
     CDS             complement(4605..4760)
                     /locus_tag="IO772_26465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010940654.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF1508 domain-containing protein"
                     /protein_id="QOX40259.1"
                     /translation="MNDKWEFYLDNSKEWRWRRTASNGRIVGASSQGYVNKSDCIDNAR
                     RHGYNG"
                     /name="DUF1508 domain-containing protein"
     Typing          1446..1530
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.674"
                     /coverage="100.0"
                     /evalue="6.569999999999999e-34"
     Typing          complement(877..1426)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.765"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1832..2181
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.162"
                     /coverage="99.0"
                     /evalue="1.76e-64"
     Typing          2178..3721
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.476"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 catcatcata taaatgaccg cccttagcgt aattctcaca tcctggagta cgacatacgt
       61 aaattattga tttacaatca gaacactcac acttatctcg ccgtatcttg ttttcttgaa
      121 ttacacgggc attgatttcc tttttacaaa aaggacacac tcctttaggt tttaagtcca
      181 ttagggttta cctaatagca ctacaactta ttaattttga acgacattta gggcaataat
      241 caggtgtccc aaatccagct ctactggtcc attcgtggcg gcagtttaag catttagccc
      301 gatagatgac gatacctgcc ataaaaatcc cctttttatc atacactaat attgatttat
      361 tatattctga acataataaa tgtaaagtat actatgtgat aaacgtaatg cattgatttt
      421 attaatatta aaaatattta ttagagtgct aataatggta tttttttgat ttttttatta
      481 aaaacaatat gttgtatatg tgttggtgtc gtttgattac gttcaataaa tgcgtgtatc
      541 aatattagat atacaaaaat gaagttagaa ggtggctggg agttttagga gatttgccct
      601 ccttcagtaa aaagatcaaa ggatcctctt gagatccttt ttttctgcgc gtaatctgct
      661 gcctgtaaac gaaaaaaccg cctggggagg cggtttagtc gaaggttaag tcagttgggg
      721 actgcttaac cgggtaactg gcttggtgga gcacagatac caaatactgt ccttctagtg
      781 tagccgcagt taggccacca cttcaagaac tcttaatatc tcaatccacc ttgtccagtt
      841 accagtggct gctgccagtg gcgctttgtc gtgtctttcc gggttggact caagacgata
      901 gttaccggat aaggcgcagc ggtcgggctg aacggggggt tcgtgcacac agcccagctt
      961 ggagcgaacg acctacaccg aactgagata ccaacagcgt gagctatgag aaagcgccac
     1021 gcttcccgaa gggagaaagg cggacaggta tccggtaagc ggcagggtcg gaacaggaga
     1081 gcgcacgagg gagcttccag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg
     1141 ccacctctga cttgagcgtc gatttttgtg atgcttgtca ggggggcgga gcctatggaa
     1201 aaacgcctgt gtcgctggct tcttccggtg ctttgctttt tgctcacatg ttctttccgg
     1261 ctttatcccc tgattctgtg gataaccgta ttaccgcctt tgagtgagct gacaccgctc
     1321 gccgcagtcg aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa gagcgtcgga
     1381 agttgcattt tctccttacg catctgtgcg gcatttcaca ccgcatatgg cgctcttttc
     1441 ttacaatccg cactgatgcc gcatagataa gccagtatac actccgctat cgctacgtga
     1501 ctggttcagg gcttcgcccc gaaaccccct gacgcgccct gacgggcttg tctgctcccg
     1561 gcatccgctc acagacaagc tgtgaccgtc tccgggagct gtatgtgtca gaggttttca
     1621 ccgttatccc cgaagcgtgc gaggcagctg cggtaaagct catcggcgtg gtcgtgaaga
     1681 gattcacaga tgtctgcctg ttcatccgcg tccagttcgt tgagcttctc cagcagcgtt
     1741 aatgtctggc ttctgataaa gcgggccatg ttaagggcgg ttttttcctg tttggtcact
     1801 gatgcctccg tgtaaggggg atttctgttc atgggggtaa tgataccgat gaaacgcgag
     1861 aggatgctca cgatacgggt tactgatgat gaacatgccc ggttactgga acgctgtgag
     1921 ggtaaacagc tggcggtatg gatgcggcgg gtctgcctgg gtgagccggt tgcccgttcc
     1981 gggaagctgc cgacactggc accgccgtta ctgcgtcagc tggctgccat cgggaataac
     2041 ctgaatcaga cggcgaggaa ggtgaacagc gggcaatggt cttccggtga ccgggttcag
     2101 gtggtggccg cactgatggc catcgagaga gagttgcgca gcttacggca ggtcgtcagg
     2161 gaacagggag cgcgggatga ttgttaaatt tcatgccagg ggaaaaggcg gtggcagtgg
     2221 tccggttgat tacctgctgg gaagggagcg aaaccgggaa ggcgcaacgg tgcttcaggg
     2281 taatccggaa gaagtccggg aactcatcga tgccacgcca tttgcgaaga aatacacgtc
     2341 cggtgttctg tcgttcgcag agaaggaact gccgctggga ggacgtgaaa aagtgatgga
     2401 gagctttgag cgcgtactga tgcccggtct cgaaaaaaat cagtacagca tcctgtgggt
     2461 ggagcaccag gacaagggac ggcttgagct gaattttgtc attccgaaca tggagctaca
     2521 gacaggaaaa cgcctccagc cgtactacga ccgggcagac aggccgagaa ttgatgcctg
     2581 gcagacgctg gttaatcacc attacgggct gcatgacccc aacgccccgg agaatcgccg
     2641 gacgctgaca ctccctgata acctgccgga aacgaaacag gcgcttgctg agagcgttac
     2701 acgaggcctg gaggtgcttt accatgccgg ggagataaaa ggccgtcagg atgtgattca
     2761 ggcgctcaca gaggtggggc ttgaagtggt cagggtgacg cgaagcagta tcagcattgc
     2821 agacccgaac ggcgggagga atatcagact gaaaggagca ttttatgagc aatattttac
     2881 agacgggcgc ggagttcgag aaaaagctga aagagagagc cgaatctaca gagaaaatgc
     2941 tgaacgacga attcagcagg ctcggcgaat ctgtaagcga ggctgtgacc tcaaacgaga
     3001 cgaaaatcaa agacgctata gccctgttca caacgtcgac agaggaatcg ctgaaaaaac
     3061 accgggaagg ggtgaaagag gcgatgatgc agcaccggaa ggacatgtta aagctggcag
     3121 ggagttcggg catgaggttg ctggggatag tctttctcct gtttaccgcg agtggcggga
     3181 cgctctggta tctcggcggg aggatacaga cgaacctgga agaaatcagg gtacaggaag
     3241 agacattgcg gaaactgaac gcgaagacat ggggtgtgga gtttgttcag ggcgggggaa
     3301 gaaaatttct ggtcattccg caagggatgt cagcagaggt gacgcactat caggggaagg
     3361 actggataca actgacggag tgatacggaa tgacagagct ggaaacacat ttgctgaacg
     3421 ccttagagca gctgcaacag gactatatgc agcggctgaa cgaatgggag agcgccttcg
     3481 tggaattgca gaagatgttt tcgcttacgc aacgggacaa cgcgatgctg aacgagcggg
     3541 tcatgcagtt gagtcagcag gtgcagcact tgagtgggca gacagaacgc ttgagccagt
     3601 tatacagcga gaactggaaa taagggagga acggctgata caggagcgcg aacatgcgtt
     3661 atccctagaa cgggaacgcc agctggaaat acaggaacgc acactggatg gtccttcgtt
     3721 gtcgctgtga tggcgaaact ataaaaaatg gcaggttcag tggattttga cggactaatg
     3781 tagtctgcac catctggttg cataggtatt catgcggtta aaatttatca ggcgcgatcg
     3841 cggcagtttt tcgggtggtt tgttgccatt tttacctgtc tgctgccgtg atcgcgctga
     3901 acgcgtttta gcggtgcgta caattacagg gttatgttaa attgatggtt tgataagtgt
     3961 tggaaataat taattccact cataaatata caagatatga aaaaaatatt gttcatatgg
     4021 tagaagagct atagggatat ttggtttcaa aatattcctt ttaggaaatg gattaactaa
     4081 aacaggtact aaaatacctg ttaaaaataa tgagagagat aactctctgt tagggcgtgt
     4141 gttggggata tagaaatatt tggtattgct tacgaaatcg attggttttc atgataatta
     4201 actaatatag ttatatggtt ttgtgcgcta ccattaatta ttcttttctc tattcttctc
     4261 ttctacaact ttttgaattg ctgctcgata cttatcaggg aactctttta ccgcctttaa
     4321 aagaccttca ccacatggag ggcacagttc gtcatcgtaa agtaatccgc cttttgcgta
     4381 gtcattacag aatatatttc ggcatttata aataatctct ccacaagttg tacatttaca
     4441 tttatctctg cggatggtgt ttttttctat aacttctgga gccatttcgc tattgcaaaa
     4501 agggcactta cctttgtgtt ttctttccat ggtatttttc tatttgttta tctctttgca
     4561 attgggattc ctgcttggaa tcccaacatg agaatcaatt tatattagcc gttgtagcca
     4621 tgacgacgtg cgttatcaat acaatcagat ttattgacat atccttgaga tgatgctcca
     4681 acaattcgcc cgttgcttgc agttctgcgc cagcgccact cttttgaatt atcgagataa
     4741 aactcccact tatcgttcat ttaggtttcc ttcttccagt tagatattta gtgatgattt
     4801 gtaccagcag gtaggtatca tttcattttt ttttctaata agcgtgttac aactgtactg
     4861 acgacgatac ttaaggctgt tgtccctaat gcgccgatac ttctacctat gttcgacatg
     4921 catgacgggc ataatt
//
