LOCUS       NZ_CP069887             2257 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1289 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP069887
VERSION     NZ_CP069887.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357431
            Assembly: GCF_016903315.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2257)
  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  JOURNAL   Unpublished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 2257)
  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                   :: 1351.18x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:17:14
            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)                     :: 5,431
            CDSs (total)                      :: 5,308
            Genes (coding)                    :: 5,115
            CDSs (with protein)               :: 5,115
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 193
            CDSs (without protein)            :: 193
            Pseudo Genes (ambiguous residues) :: 0 of 193
            Pseudo Genes (frameshifted)       :: 64 of 193
            Pseudo Genes (incomplete)         :: 139 of 193
            Pseudo Genes (internal stop)      :: 44 of 193
            Pseudo Genes (multiple problems)  :: 46 of 193
            Pseudo Genes (short protein)      :: 4 of 193
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069887.1.
            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..2257
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1289"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1289"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(2210..2257,1..180)
                     /locus_tag="I6K19_RS26805"
                     /old_locus_tag="I6K19_26800"
     CDS             join(2210..2257,1..180)
                     /locus_tag="I6K19_RS26805"
                     /old_locus_tag="I6K19_26800"
                     /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="WP_109475618.1"
                     /translation="MYSRHTVGTPNILVRAAPRHPANASRHAKKFRVPLTVPELVKQKI
                     AGSRAFGVGSDFVIDDVTGKTLGMVVGVTQ"
                     /name="hypothetical protein"
     gene            725..1714
                     /locus_tag="I6K19_RS26810"
                     /old_locus_tag="I6K19_26805"
     CDS             725..1714
                     /locus_tag="I6K19_RS26810"
                     /old_locus_tag="I6K19_26805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001529700.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_052923600.1"
                     /translation="MKNPELQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRLKDRKEFRPVQGWIRTTEVTRSS
                     DGSAHPHFHTLMMVPPSMLSGDGYVKHARWVELWRECLRVSYDPNVDVRAVKPRKPKDG
                     ESLAGATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          1718..1798
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="89.0"
                     /evalue="5.64e-30"
     Typing          complement(1441..1632)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.891"
                     /coverage="100.0"
                     /evalue="2.88e-86"
ORIGIN
        1 gcgccccgac accccgccaa cgcctcacgg cacgcgaaaa aattccgcgt accgctcacc
       61 gttcccgaac tcgtcaaaca gaaaatcgcg gggtcccgcg cctttggcgt gggttccgat
      121 tttgtgattg acgacgtcac ggggaaaaca ctggggatgg tggttggtgt cacgcagtga
      181 gaccaaccac ctgcgaggcg gtttgaaaga tctgctgctg gatatggttt taacgtatga
      241 aattaaattg gcagtactgc aaaacgaaaa cacggatgcg aaaatcacaa accagataga
      301 tttataaaac tttgtgggag gtgaagatgt tttttgaggc ttttgatcgc attgatgcgg
      361 cgcttagcat tgcgatcccg cttctggtgt tgttgaggtt tttggttgtg aaaaagcgct
      421 gattttgcgt ttattttttg ctcaaagctc gcgcgcgttc cttgtattta tacttaaggg
      481 ataactctgg gattcaaatt ggcctccagc ccttgtcccg caaggcttga gggcacattt
      541 gctccgaaat gggtttggaa gtattctgtc ggaagtggtc gcgttaaaag tgacccccgc
      601 aacgacgggc atcgttcggg ggcgtgacca cctgtagaga ttcgaattgg tgatacggct
      661 aacacaggtg atatggcaat gataacacgt cagatgagcc atcgcccaca atcgggtggt
      721 gtgcatgaaa aatcctgaac tccagaacct cacggactat tccccctcag atgcgccctg
      781 ggacgctcac agaagcgttt ctgacgacgt gggagggatt tacctgcttg cggccgaata
      841 tgagcgctac ggggcgcgta tggccctctg tggcggttta ttgcgtttcg ggtggtctac
      901 cctcaaggaa accggagaaa cgcgtctgag gctgcgtgag gcgcatttct gccgtgtccg
      961 gcactgtcct gtctgccagt ggaggcgctc cctgatgtgg caagcccgtt tctaccagtc
     1021 cctgccgcgt atcgtggcgg attaccctga tgcccgctgg atgttcctga ccctgaccgt
     1081 gcgcaactgt gcgatcgggg agctgggcga gatgctgaac cggatgaatg cagctttcca
     1141 gcgactgaag gatcgcaagg agttccggcc tgttcagggc tggatacgca ccacggaagt
     1201 cacccgcagc agtgacggca gcgcacatcc ccacttccac accctgatga tggtgccgcc
     1261 ctcaatgcta tctggtgacg gttacgtaaa acatgctcgc tgggttgaac tctggcggga
     1321 gtgcctgcgg gtcagttacg acccgaatgt tgatgtccgg gcagtaaaac cccgtaagcc
     1381 aaaggatggc gaatcgctgg ccggtgccac tgccgaactg gtgcgcggtg cggtggccga
     1441 aaccctgaaa tattccacga agccggctga catggtggcc gatcctgaat ggttcctcga
     1501 actgacccgc cagacgcaca agcgccgctt tgtggcgacc ggcggtgcac tcaaagacgt
     1561 actgaagctc gatcaggaaa ccgatgccga catggtgatt ggggatgata tttccgaggg
     1621 tgacgatgac ggttcacgca tcgcgttcga gtggaaaacc gaggtcagaa agtaccgtcg
     1681 ctcaccgacg aaagataaaa ctgaatcaga ctagcagggt gtcggggtgc agccctgacc
     1741 agatggcaat tgtgatagcg tcgcgtgtga cggtattaca attgcacatc ctgtcccgaa
     1801 aattcccgtc ccgaaaattc ccgccgtttc tcggtttttt gagcatcgca gatcgcacga
     1861 caaacgaaac gaagtgaagt ttgtataagt gcgcacttcg tgggtgttct gtgccgccag
     1921 cttgtcgaac gcgtggcgga gctgcgcgac aaaaatggca aaataattcg ctgtccgttc
     1981 gccagaattt tgcacggccg tggtagctgc aggagcgcag aacggcagaa aattgccagc
     2041 gttccggcaa aaaaatcgga acaagaaatc cccgtgtttt actccgatgc aggatagggc
     2101 aaacgccgca aagtgacgtc tctgacgcca tttcgcaacg tttgcccggt gacctacagt
     2161 cggttcaaca aacaaaaaaa ccgctgcgga gtcgggacaa gatacatgtt tgtattcccg
     2221 ccacacggtc ggtactccaa acatcctggt cagggct
//
