LOCUS       NZ_CP069592             1552 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1266 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP069592
VERSION     NZ_CP069592.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357408
            Assembly: GCF_016890105.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1552)
  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  JOURNAL   Unpublished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 1552)
  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                   :: 586.93x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:16:32
            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)                     :: 5,156
            CDSs (total)                      :: 5,043
            Genes (coding)                    :: 4,844
            CDSs (with protein)               :: 4,844
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 69 of 199
            Pseudo Genes (incomplete)         :: 143 of 199
            Pseudo Genes (internal stop)      :: 37 of 199
            Pseudo Genes (multiple problems)  :: 45 of 199
            Pseudo Genes (short protein)      :: 3 of 199
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069592.1.
            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..1552
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1266"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1266"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            1045..1521
                     /locus_tag="I6J96_RS25450"
                     /old_locus_tag="I6J96_25450"
     CDS             1045..1521
                     /locus_tag="I6J96_RS25450"
                     /old_locus_tag="I6J96_25450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          563..648
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.954"
                     /coverage="95.0"
                     /evalue="4.39e-26"
     Typing          complement(858..966)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(200..460)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="3.95e-106"
ORIGIN
        1 tgttaacgtt ctgaccatga ttgtctatcc tgcattgctc ttttgccgcc tcaaaatccc
       61 ttgcgtgttt ttgctccccg atctccagaa cgaccgagcc gccacggttc cggcagcgcc
      121 ttgagcgcaa ccggaaaccg tctggggaga accccagacc cccatcgctg taacaccgac
      181 ggtctacgac cacctaccaa ccgagtgact gcctgtaccg tgcaaatggg ctttgcaggg
      241 ggctggcgcg gttcctggcg acctgaaagc ccctggctag gggtatcggc gcgcctgacc
      301 tcctgaaacg ctctgtaagc gtttttcgcg ccttccatgc cctgacgggc atttaaaccc
      361 cgcctcgtgc gtctgagagc ttctgagcgc gtttgaaggg ctatctgacg actcatcccc
      421 gaaagaacaa cagcggaatc accgacaaca tgcgagaggt ggcaccgctc gccgcagccc
      481 cagcgaccga acgttagtga gcgagtgggc gaggaagcgg aagagaaccg gaaaccacat
      541 tgagcacgta cgcactgata cggggtgtcg gggcgaagcc ctgaccagat ggcaaacgga
      601 atatcgtcgc gggtgacggt attacatttg cacatcctgt cccgatttct gcgggggtta
      661 acggtgaacg gacggcaaaa aacgtgcagg agctgttgaa cgtgaaaacc acgaaatctg
      721 gcaaaaatca cggctggcga ggcttgcaga ggagtaagcc agtatacact ccgctatcgc
      781 tacgtgactg ggtcagggct tcgccccgac acccccaaag ggcgttgcgt tgcgcgcaac
      841 acccttgcct agaatagatc ttttacgccg atttgtaagt tgttgttttt ttagtgtgtt
      901 ttttgtttac ctgtcgcatc cagggtgaca caacgttgtc gcatcctgga tgcgacaaca
      961 cgcaacaagg tgttgcacag atgtgtcatg atggcttaga tttgaaccaa cgttagtgca
     1021 tgggattttt agagggaaaa aatcatgttt attgattcag aaaaacgact gaaacaactt
     1081 tcagatgagg caaagaaaaa caccgaggat ctcgaagaag caaagaagaa ttcaaggttt
     1141 acacaggtat ccccaaaagg ttgggaacgc gttcgagagc tgctgaagga tagccaaggc
     1201 atatcagcac tgaagctgta ctcattttta gcggagcata tcgatcctac gtgtggcgct
     1261 gtcgttgcgg atcagcaatt cctagctgaa aaacttggag ttagcagaag cacaattatt
     1321 cgttggctca attacttaga atcaaaaaat gcattagtta gaatccccgt tgctggtaag
     1381 gtttgtgcgt atgccctcga tccacatgaa gtctggaagg gatacaacac tacgaaaaac
     1441 catgcagcat ttgtcactaa aacactggtc aacaaagacg gtgatattca gcgccgaatc
     1501 atggccatgt tttcaaattg agccagcggc aggcggacaa tcaggggcta cg
//
