LOCUS       NZ_CP070127             1843 bp    DNA     circular CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1292 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP070127
VERSION     NZ_CP070127.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357434
            Assembly: GCF_016904475.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1843)
  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  JOURNAL   Unpublished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 1843)
  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                   :: 1353.32x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:30:25
            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)                     :: 5,003
            CDSs (total)                      :: 4,888
            Genes (coding)                    :: 4,705
            CDSs (with protein)               :: 4,705
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 71 of 183
            Pseudo Genes (incomplete)         :: 119 of 183
            Pseudo Genes (internal stop)      :: 40 of 183
            Pseudo Genes (multiple problems)  :: 44 of 183
            Pseudo Genes (short protein)      :: 4 of 183
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070127.1.
            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..1843
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1292"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1292"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            join(1708..1843,1..83)
                     /locus_tag="I6K22_RS24655"
                     /old_locus_tag="I6K22_24655"
     CDS             join(1708..1843,1..83)
                     /locus_tag="I6K22_RS24655"
                     /old_locus_tag="I6K22_24655"
                     /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_141071555.1"
                     /translation="MNTEDKLMLKVDRLLSHDALNQRNILNNWERQFLTSVLAIYRRIN
                     KYSLVGLSPKQKNATYNILKKYKFHTD"
                     /name="hypothetical protein"
     gene            1165..1689
                     /locus_tag="I6K22_RS24660"
                     /old_locus_tag="I6K22_24660"
     CDS             1165..1689
                     /locus_tag="I6K22_RS24660"
                     /old_locus_tag="I6K22_24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893324.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_045145680.1"
                     /translation="MLEQRFEDFEQQKRRDHKAQDQAQNTKQKRDRLNPPDWSQVTKAG
                     WNMLDAISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLER
                     IGAIVKIPVGIYYAYALDPYQVWRGYNKSKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFESSLKPSKS"
                     /name="replication/maintenance protein RepL"
     Typing          693..791
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.0"
                     /coverage="100.0"
                     /evalue="6.26e-40"
     Typing          complement(333..593)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.748"
                     /coverage="100.0"
                     /evalue="8.56e-103"
ORIGIN
        1 aatattcttt agttgggcta tcaccaaaac agaaaaatgc aacgtataac attttaaaaa
       61 aatataaatt tcatactgat taaaagtgaa atattttaaa gagccagcgg cagggggaca
      121 atcaggggct acgtgttaac gttctgacca tgattgtcta tcctgcattg ctcttttgcc
      181 gcctcaaaat cccttgcgtg tttttgctcc ccgatctcca gaacgaccga gccgccacgg
      241 ttccggcagc gccttgagcg caaccggaaa ccgtctgggg agaaccccag acccccatcg
      301 ctgtaacacc gacggtctac gaccacctac caaccgagtg actgcctgta ccgtgcaaat
      361 gggctttgca gggggctggc gcggttcctg gcgacctgaa agcccctggt taggggtatc
      421 ggcgcgcctg acctcctgag agcctctgta agcgtttttc gcgccttcca tgccctggcg
      481 ggcatctaaa acccgtttcg tgcgtctgag agcttttgag cgcgtttgag gggctatctg
      541 gcgactcatc cccgaaagaa caacaacggg atcaccgaca acatgcgaga ggtgatcccg
      601 ctcgccgcaa gtcgatgacc gagcgtagcg agcgaatcga cgaggaagcg gaagagaacc
      661 ggaagccaca ttgagcactt acgcactgat gcggggtgtc ggggtgaagc cctgaccagg
      721 tggtaatcgt atcggcgtgc gtgcgcggtc atacgattac acatcctgtc ccgatttctg
      781 aggcgtttta acggtgaacg gacggcaaaa acacgatgga gctgttgaac gtgaaaacca
      841 cgaaatctgg caaaaatcac ggctggcgag gcttgcagag gagtaagcca gtatacactc
      901 cgctatcgct acgtgactgg gtcagggctg cgccccgaca ccccaaatgc tcgataaaca
      961 cgttaaacct tgtgcaacaa aaaagtgctt tgatagatct ttagagcaaa aatcaacatt
     1021 tcgattaata tcaatgactt atgacaccat catacgaaac gttatttgca tgtgtatacg
     1081 caaacatgtt tgcgtgtgtt gtttcgtact gtacgatata aatttcgtaa ggtacgaaag
     1141 attgttgcag gtaaggatgc aagtatgctg gaacagcgat ttgaagactt tgaacagcaa
     1201 aaacggcgag atcacaaggc acaagatcaa gcccaaaaca ctaagcaaaa acgagatcgg
     1261 ttgaatccac ctgactggtc acaagtcact aaggctggtt ggaatatgtt ggacgctata
     1321 tccgagaagg ttcctagggc atttaggcta tattcttttt ttgctcaaaa tatagataaa
     1381 tcgtgtggag ctgttgtatg tgatcaaaaa ttcctagctg attatttcgg ggttagttta
     1441 aggacaattc aatattggat cggagattta gaacgtattg gtgcaatagt aaaaatacca
     1501 gtaggtattt attatgctta tgctttagat ccttatcagg tatggcgtgg atataataaa
     1561 tctaaaaaat atgcagcatt taacgcaaaa acattaactc aaaaagatgg tgttattgat
     1621 cgtaagttgc ggctcatgct ctctagaaga gaagagtttg aaagctcact caagccctct
     1681 aaatcatgac tagtcttgga ggtctagatg aatactgaag ataagctaat gctaaaagtt
     1741 gatcgattac ttagtcatga tgcgttaaat caacgcaata ttttaaataa ttgggaaaga
     1801 caatttttaa caagtgtttt agctatctat aggaggatca ata
//
