LOCUS       NZ_CP069577             3071 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1250 plasmid unnamed7, complete
            sequence.
ACCESSION   NZ_CP069577
VERSION     NZ_CP069577.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357392
            Assembly: GCF_016890005.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3071)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3071)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.14.1
            Genome Coverage                   :: 770.24x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:03:03
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,029
            CDSs (total)                      :: 4,910
            Genes (coding)                    :: 4,669
            CDSs (with protein)               :: 4,669
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 65 of 241
            Pseudo Genes (incomplete)         :: 178 of 241
            Pseudo Genes (internal stop)      :: 44 of 241
            Pseudo Genes (multiple problems)  :: 45 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069577.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3071
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1250"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1250"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1973..2128
                     /locus_tag="I6J80_RS24765"
                     /old_locus_tag="I6J80_24780"
                     /pseudo=""
     CDS             <1973..2128
                     /locus_tag="I6J80_RS24765"
                     /old_locus_tag="I6J80_24780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_707212.3"
                     /GO_function="GO:0043565 - sequence-specific DNA binding
                     [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /name="helix-turn-helix domain-containing protein"
     gene            2222..2866
                     /locus_tag="I6J80_RS24770"
                     /old_locus_tag="I6J80_24785"
     CDS             2222..2866
                     /locus_tag="I6J80_RS24770"
                     /old_locus_tag="I6J80_24785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017900990.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="quinolone resistance pentapeptide repeat protein
                     QnrB19"
                     /protein_id="WP_012954666.1"
                     /translation="MTLALVGEKIDRNRFTGEKVENSTFFNCDFSGADLSGTEFIGCQF
                     YDRESQKGCNFSRAMLKDAIFKSCDLSMADFRNVSALGIEIRHCRAQGADFRGASFMNM
                     ITTRTWFCSAYITNTNLSYANFSKVVLEKCELWENRWMGTQVLGATFSGSDLSGGEFST
                     FDWRAANFTHCDLTNSELGDLDIRGVDLQGVKLDSYQASLLMERLGIAVIG"
                     /name="quinolone resistance pentapeptide repeat protein
                     QnrB19"
     ARG             2223..2863
                     /name="qnrB19"
                     /gene="qnrB19"
                     /gene_name="quinolone resistance pentapeptide repeat
                     protein QnrB19"
                     /tool="amrfinderplus"
                     /drug_class="QUINOLONE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(1071..1244)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          1223..1714
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.51"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 aatcatgaag ccatgtctta acgaaaatat ggctaactca tagcaaaaaa aaagccccct
       61 aagggctttt ttttgtacct gacggtcaga ccgattaaac ataacatccc ttgcgtgcac
      121 cgcctgagag gctctgaggg cgtttctgac gggaaaccgg taaaacaggc aacaaaccac
      181 ccgaaaaccc gccagaaacg cgcaggctct gtttttacgg catgcatgag tatgcgcgca
      241 agtgcatagc gcggaaattc acaccattca gccaggggaa gtcctgtttc cggcgttctt
      301 cccatccgaa aacggtgaac ggggacgcaa tttattgcgt ggccgtgaag cgttgccggc
      361 gcagccggaa aacccgctgt cagcacgttc aggaaggggg tgatgtacaa atggcacaga
      421 ggatgaaagt gacgtatgag ctgaaggaat gatgtaaaag tgatgtataa atgatgtaaa
      481 agtgatgcaa aagtgttgta aaagtgatgt acaggccgaa ggagtgttgt aaaagtgttg
      541 taaaagtgat gtatgaactg aaggagcgat gtaattctgt agtcaggaag aataacccgt
      601 tcatgcaggc atgaacgata cagtgaggaa cgcttttttt tgtcacgatc tccccttaac
      661 ctgcgtaaat cacccgccat ggttgattat ttttcaacct caaaatggtc atacacctaa
      721 cgcagccgcg attttcatcg caactgcatg aattaaaaga aaaaaaagta atgtttcgtt
      781 ttcacgagta atacccaggt attaaaaacc cactgtaatt acatgaaaat aaagaaataa
      841 aaggtaatac cggcgtatta ccacgtacgc gggcaagcga aaaagctata acgcttcccg
      901 gccgacaggc ggcccagaat ccacaggggc atgcaggatc tcttcagtaa ccttcgccat
      961 taaatcaaaa aggtcatatt cgccgggaag ctgcgtatca gtcgaacccc gttgttcatc
     1021 atattcagat ggcatggggt gatatccagt agcagagagg ttgttagcgg gtttcggggc
     1081 gcagccctga accagtcacg tagcgctagc ggagtgtata ctggctgact atgttggcac
     1141 ggatgtggaa atcagtgaag tgcttcatgt agcaggagaa aaaaggcggc accagcgcgt
     1201 cagcaggata tgtagtacag gatatattcc gcttcctcgc tcactgactc gctgcgctcg
     1261 gtcgttcggc tgcggcgagc ggtgccggct tacaggcggg gcggaaattt cctgggagat
     1321 accaggaagg agcttaacag ggaagagata aggccgcggc gaagccgttt ttccataggc
     1381 tccgcccccc tgacaaacat catgaaatct gacgctcaaa tcagtggtgg cgaaacccga
     1441 tgcggcttaa agataccagg cgtttccccc tggtggctcc ctcgtgctcc cccgcattcc
     1501 tgcctttcgg tttaccggtg tcattccgct gttatggccg cgtttatctc attccacgcc
     1561 tgacactcag ttccgcgaag gcagttcgct cctggatgga ctgtatgcac gaaccccccg
     1621 ttcagtccga ctgctgcgcc ttatccggta actatcatct tgagtccaac ccggaaagac
     1681 acgacttatc gccactggca gcagccactg gtaactgatt tagaggagtt agtcttgaag
     1741 ttatgcgcct gttaaggcta aactgaaaga acagatttgg ttactgcgct cctcgtaagc
     1801 cagttaccac ggttcaaaga gttgctgctc tgagaacctt cgaaaaaccg ccttgcaggg
     1861 cggttttttc gtttacagag caagagatta cgacgccaca gaaaggatct caagaagatc
     1921 cttcaccgta atggaaatct atccaatccg agcacatagg atacacatcg ttataacgct
     1981 ggatctgcgt gaattccagc agcagcaaga gaaagacttt ctacaaacca gcttacagca
     2041 ggctaaattt aaccagaaaa aagccgctga attactgggt ctgacttatc atcagctacg
     2101 tgccttgctg aagaaacacc agatctaata cgcatttgca ggtgtcatac tggcgggttt
     2161 gacgcataac gtcataaggt ttaccatggc gtcattactg tataaaaaca caggcataga
     2221 tatgactctg gcattagttg gcgaaaaaat tgacagaaat cgcttcaccg gtgagaaagt
     2281 tgaaaatagt acatttttta actgcgattt ttcaggtgcc gacctgagcg gcactgaatt
     2341 tatcggctgc cagttctatg atcgcgaaag tcagaaaggg tgcaatttta gtcgcgcaat
     2401 gctgaaagat gccattttca aaagctgtga tttatcaatg gcagatttcc gcaacgtcag
     2461 tgccttgggc attgaaattc gccactgccg cgcacaaggc gcagatttcc gcggtgcaag
     2521 ctttatgaat atgatcacca cgcgcacctg gttttgcagc gcatatatca ctaatactaa
     2581 tctaagctac gccaattttt cgaaagtcgt gttggaaaag tgtgagctgt gggaaaaccg
     2641 ctggatgggg actcaggtac tgggtgcgac gttcagtggt tcagatctct ccggcggcga
     2701 gttttcgact ttcgactggc gagcagcaaa cttcacacat tgcgatctga ccaattcgga
     2761 gttaggtgac ttagatattc ggggtgttga tttacaaggc gttaagttag acagctacca
     2821 ggcatcgttg ctcatggagc ggcttggcat cgctgtgatt ggttagttca gcgtttacac
     2881 cgggagatgc gtttgacgat ttacttttaa ccagtacgac tcctggcaag cattgtgaaa
     2941 cgttttctcc agtggacgaa tatcctgacc taccgcatca acgacatgcc atctaatgct
     3001 gcattctgga caggaatttg atgaatatct aaccaattca ttttcgcgag aacaacgaat
     3061 aaccactccc g
//
