LOCUS       NZ_CP069895             1552 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1286 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP069895
VERSION     NZ_CP069895.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357428
            Assembly: GCF_016903375.1
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  JOURNAL   Unpublished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
            Genome Coverage                   :: 1520.67x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:01:12
            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)                     :: 5,075
            CDSs (total)                      :: 4,949
            Genes (coding)                    :: 4,749
            CDSs (with protein)               :: 4,749
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 200
            CDSs (without protein)            :: 200
            Pseudo Genes (ambiguous residues) :: 0 of 200
            Pseudo Genes (frameshifted)       :: 79 of 200
            Pseudo Genes (incomplete)         :: 130 of 200
            Pseudo Genes (internal stop)      :: 52 of 200
            Pseudo Genes (multiple problems)  :: 57 of 200
            Pseudo Genes (short protein)      :: 5 of 200
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069895.1.
            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_1286"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1286"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(244..720)
                     /locus_tag="I6K16_RS24960"
                     /old_locus_tag="I6K16_24960"
     CDS             complement(244..720)
                     /locus_tag="I6K16_RS24960"
                     /old_locus_tag="I6K16_24960"
                     /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          800..908
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(1111..1203)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.426"
                     /coverage="100.0"
                     /evalue="4.39e-26"
     Typing          1306..1552
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.355"
                     /coverage="95.0"
                     /evalue="2.38e-103"
ORIGIN
        1 gcagtcactc ggttggtagg tggtcgtaga ccgtcggtgt tacagcgatg ggggtctggg
       61 gttctcccca gacggtttcc ggttgcgctc aaggcgctgc cggaaccgtg gcggctcggt
      121 cgttctggag atcggggagc aaaaacacgc aagggatttt gaggcggcaa aagagcaatg
      181 caggatagac aatcatggtc agaacgttaa cacgtagccc ctgattgtcc gcctgccgct
      241 ggctcaattt gaaaacatgg ccatgattcg gcgctgaata tcaccgtctt tgttgaccag
      301 tgttttagtg acaaatgctg catggttttt cgtagtgttg tatcccttcc agacttcatg
      361 tggatcgagg gcatacgcac aaaccttacc agcaacgggg attctaacta atgcattttt
      421 tgattctaag taattgagcc aacgaataat tgtgcttctg ctaactccaa gtttttcagc
      481 taggaattgc tgatccgcaa cgacagcgcc acacgtagga tcgatatgct ccgctaaaaa
      541 tgagtacagc ttcagtgctg atatgccttg gctatccttc agcagctctc gaacgcgttc
      601 ccaacctttt ggggatacct gtgtaaacct tgaattcttc tttgcttctt cgagatcctc
      661 ggtgtttttc tttgcctcat ctgaaagttg tttcagtcgt ttttctgaat caataaacat
      721 gattttttcc ctctaaaaat cccatgcact aacgttggtt caaatctaag ccatcatgac
      781 acatctgtgc aacacattgt tgcgtgttgt cgcatcctgg atgcgacaac gttgtgtcac
      841 cctggatgcg acaggtaaac aaaaaacaca ctaaaaaaac aacaacttac aaatcggcgt
      901 aaaagatcta ttctaggcaa gggtgttgcg cgcaacgcaa cgccctttgg gggtgtcggg
      961 gcgaagccct gacccagtca cgtagcgata gcggagtgta tactggctta ctcctctgca
     1021 agcctcgcca gccgtgattt ttgccagatt tcgtggtttt cacgttcaac agctcctgca
     1081 cgttttttgc cgtccgttca ccgttaaccc ccgcagaaat cgggacagga tgtgcaaatg
     1141 taataccgtc acccgcgacg atattccgtt tgccatctgg tcagggcttc gccccgacac
     1201 cccgtatcag tgcgtacgtg ctcaatgtgg tttccggttc tcttccgctt cctcgcccac
     1261 tcgctcacta acgttcggtc gctggggctg cggcgagcgg tgccacctct cgcatgttgt
     1321 cggtgattcc gctgttgttc tttcggggat gagtcgtcag atagcccttc aaacgcgctc
     1381 agaagctctc agacgcacga ggcggggttt aaatgcccgt cagggcatgg aaggcgcgaa
     1441 aaacgcttac agagcgtttc aggaggtcag gcgcgccgat acccctagcc aggggctttc
     1501 aggtcgccag gaaccgcgcc agccccctgc aaagcccatt tgcacggtac ag
//
