LOCUS       NZ_CP070075             2257 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1287 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP070075
VERSION     NZ_CP070075.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357429
            Assembly: GCF_016904235.1
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  JOURNAL   Unpublished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                   :: 1324.23x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:20:13
            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)                     :: 5,569
            CDSs (total)                      :: 5,447
            Genes (coding)                    :: 5,190
            CDSs (with protein)               :: 5,190
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 94 of 257
            Pseudo Genes (incomplete)         :: 161 of 257
            Pseudo Genes (internal stop)      :: 67 of 257
            Pseudo Genes (multiple problems)  :: 56 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070075.1.
            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_1287"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1287"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(1374..2257,1..106)
                     /locus_tag="I6K17_RS27455"
                     /old_locus_tag="I6K17_27455"
     CDS             join(1374..2257,1..106)
                     /locus_tag="I6K17_RS27455"
                     /old_locus_tag="I6K17_27455"
                     /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"
     gene            602..829
                     /locus_tag="I6K17_RS27460"
                     /old_locus_tag="I6K17_27460"
     CDS             602..829
                     /locus_tag="I6K17_RS27460"
                     /old_locus_tag="I6K17_27460"
                     /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"
     Typing          110..190
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="89.0"
                     /evalue="5.64e-30"
     Typing          complement(2090..2257)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.041"
                     /coverage="88.0"
                     /evalue="1.36e-74"
ORIGIN
        1 tatttccgag ggtgacgatg acggttcacg catcgcgttc gagtggaaaa ccgaggtcag
       61 aaagtaccgt cgctcaccga cgaaagataa aactgaatca gactagcagg gtgtcggggt
      121 gcagccctga ccagatggca attgtgatag cgtcgcgtgt gacggtatta caattgcaca
      181 tcctgtcccg aaaattcccg tcccgaaaat tcccgccgtt tctcggtttt ttgagcatcg
      241 cagatcgcac gacaaacgaa acgaagtgaa gtttgtataa gtgcgcactt cgtgggtgtt
      301 ctgtgccgcc agcttgtcga acgcgtggcg gagctgcgcg acaaaaatgg caaaataatt
      361 cgctgtccgt tcgccagaat tttgcacggc cgtggtagct gcaggagcgc agaacggcag
      421 aaaattgcca gcgttccggc aaaaaaatcg gaacaagaaa tccccgtgtt ttactccgat
      481 gcaggatagg gcaaacgccg caaagtgacg tctctgacgc catttcgcaa cgtttgcccg
      541 gtgacctaca gtcggttcaa caaacaaaaa aaccgctgcg gagtcgggac aagatacatg
      601 tttgtattcc cgccacacgg tcggtactcc aaacatcctg gtcagggctg cgccccgaca
      661 ccccgccaac gcctcacggc acgcgaaaaa attccgcgta ccgctcaccg ttcccgaact
      721 cgtcaaacag aaaatcgcgg ggtcccgcgc ctttggcgtg ggttccgatt ttgtgattga
      781 cgacgtcacg gggaaaacac tggggatggt ggttggtgtc acgcagtgag accaaccacc
      841 tgcgaggcgg tttgaaagat ctgctgctgg atatggtttt aacgtatgaa attaaattgg
      901 cagtactgca aaacgaaaac acggatgcga aaatcacaaa ccagatagat ttataaaact
      961 ttgtgggagg tgaagatgtt ttttgaggct tttgatcgca ttgatgcggc gcttagcatt
     1021 gcgatcccgc ttctggtgtt gttgaggttt ttggttgtga aaaagcgctg attttgcgtt
     1081 tattttttgc tcaaagctcg cgcgcgttcc ttgtatttat acttaaggga taactctggg
     1141 attcaaattg gcctccagcc cttgtcccgc aaggcttgag ggcacatttg ctccgaaatg
     1201 ggtttggaag tattctgtcg gaagtggtcg cgttaaaagt gacccccgca acgacgggca
     1261 tcgttcgggg gcgtgaccac ctgtagagat tcgaattggt gatacggcta acacaggtga
     1321 tatggcaatg ataacacgtc agatgagcca tcgcccacaa tcgggtggtg tgcatgaaaa
     1381 atcctgaact ccagaacctc acggactatt ccccctcaga tgcgccctgg gacgctcaca
     1441 gaagcgtttc tgacgacgtg ggagggattt acctgcttgc ggccgaatat gagcgctacg
     1501 gggcgcgtat ggccctctgt ggcggtttat tgcgtttcgg gtggtctacc ctcaaggaaa
     1561 ccggagaaac gcgtctgagg ctgcgtgagg cgcatttctg ccgtgtccgg cactgtcctg
     1621 tctgccagtg gaggcgctcc ctgatgtggc aagcccgttt ctaccagtcc ctgccgcgta
     1681 tcgtggcgga ttaccctgat gcccgctgga tgttcctgac cctgaccgtg cgcaactgtg
     1741 cgatcgggga gctgggcgag atgctgaacc ggatgaatgc agctttccag cgactgaagg
     1801 atcgcaagga gttccggcct gttcagggct ggatacgcac cacggaagtc acccgcagca
     1861 gtgacggcag cgcacatccc cacttccaca ccctgatgat ggtgccgccc tcaatgctat
     1921 ctggtgacgg ttacgtaaaa catgctcgct gggttgaact ctggcgggag tgcctgcggg
     1981 tcagttacga cccgaatgtt gatgtccggg cagtaaaacc ccgtaagcca aaggatggcg
     2041 aatcgctggc cggtgccact gccgaactgg tgcgcggtgc ggtggccgaa accctgaaat
     2101 attccacgaa gccggctgac atggtggccg atcctgaatg gttcctcgaa ctgacccgcc
     2161 agacgcacaa gcgccgcttt gtggcgaccg gcggtgcact caaagacgta ctgaagctcg
     2221 atcaggaaac cgatgccgac atggtgattg gggatga
//
