LOCUS       NZ_CP070165             1549 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1283 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP070165
VERSION     NZ_CP070165.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357425
            Assembly: GCF_016904615.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  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  JOURNAL   Unpublished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 1549)
  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
            Genome Coverage                   :: 868.58x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:33:33
            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)                     :: 5,127
            CDSs (total)                      :: 5,003
            Genes (coding)                    :: 4,791
            CDSs (with protein)               :: 4,791
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 96 of 212
            Pseudo Genes (incomplete)         :: 128 of 212
            Pseudo Genes (internal stop)      :: 49 of 212
            Pseudo Genes (multiple problems)  :: 52 of 212
            Pseudo Genes (short protein)      :: 3 of 212
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070165.1.
            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..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1283"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1283"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(31..507)
                     /locus_tag="I6K13_RS25270"
                     /old_locus_tag="I6K13_25265"
     CDS             complement(31..507)
                     /locus_tag="I6K13_RS25270"
                     /old_locus_tag="I6K13_25265"
                     /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"
     gene            1010..1135
                     /locus_tag="I6K13_RS25275"
                     /old_locus_tag="I6K13_25270"
     CDS             1010..1135
                     /locus_tag="I6K13_RS25275"
                     /old_locus_tag="I6K13_25270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001431667.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="hypothetical protein"
     Typing          587..695
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.182"
                     /coverage="100.0"
                     /evalue="4.23e-47"
     Typing          complement(891..989)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          1089..1349
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 gtagcccctg attgtccgcc tgccgctagc tcaatttgaa aacatggcca tgattcggcg
       61 ctgaatatca ccgtctttgt tgaccagtgt tttagtgaca aacgctgcat ggtttttcgt
      121 agtgttgtat cccttccaga cttcatgtgg atcgagggca tacgcacaaa ccttaccagc
      181 aacggggatt ctaactaatg cattttttga ttctaagtaa ttgagccacc gaataattgt
      241 gcttctgcta actccaagtt tttcagctag aaattgctga tccgcaacga cagcgccaca
      301 cgtaggatcg atatgctccg ctaaaaatga gtacagcttc agcgctgata tgccttggct
      361 atccttcagc agctctcgaa cacgttccca accttttggg gatacctgtg taaaccttga
      421 atttttcttt gcttcttcga gatcctcggt gtttttcttt gcctcatctg aaagttgttt
      481 cagtcgtttt tctgaatcaa taaacatgat tttttccctc tgaaaatccc atgcactaac
      541 gttggttcaa atctaagcca tcatgacaca tctatgcaac accttgttgc gtgttgtcgc
      601 atcctggatg cgacaacgtt gtgtcatcct ggatgcgaca ggtaaataaa aaacacacta
      661 aaaaaacaac cacttacaaa tcggcgtaaa agatctattc taggcaaggg tgttgcgtgc
      721 aacgcaacgc cctttggggg tgtcggggcg aagccctgac ccagtcacgt agcgatagcg
      781 gagtgtatac tggcttactc ctatgcaagc ctcgccagcc gtgatttttg ccagatttcg
      841 tggttttcac gttcaacagc tccatcgtgt ttttgccgtc cgttcaccgt taaaacgcct
      901 cagaaatcgg gacaggatgt gtaatcgtat aaccgcgcat gcacgccgat acgattacca
      961 cttggtcagg gcttcacccc gacaccccgc atcagtgcgt aagtgctcaa tgtggcttcc
     1021 agttctcttc cgcttcctcg tcgattcgct cgctacgctc ggtcatcgac ttgcggcgag
     1081 cgggatcacc tctcgcatgt tgtcggtgat cccggtgttg ttcttttggg gatgagtcgc
     1141 cagatagccc ctcaaacgcg ctcaaaagct ctcagacgca cgaaacgggt tttagatgcc
     1201 cgccagggca tggaaggcgc gaaaaacgct tacagaggct ctcaggaggt caagcgcgcc
     1261 gataccccta accaggggct ttcaggtcgc caggaaccgc gccagccccc tgcaaagccc
     1321 atttgcacgg aacaggcagc catgcggttg gtaggtggtc gtagaccgtc ggtgttgcag
     1381 cgatgggggt ctggggttct ccccagacgg tttccggtag cgctcaaggc gctgccggaa
     1441 ccgtggcggc tcggtttttt ctggagaacg gggagcaaaa acacgcaaag gattttgagg
     1501 cggcaaaaga gcaatgcagg atagacaatc atggtcagaa cgttaacac
//
