LOCUS       NZ_CP069898             1716 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1286 plasmid unnamed5.
ACCESSION   NZ_CP069898
VERSION     NZ_CP069898.1
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 1716)
  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  JOURNAL   Unpublished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 1716)
  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
            CP069898.1.
            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/
FEATURES             Location/Qualifiers
     source          1..1716
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1286"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1286"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(661..1527)
                     /locus_tag="I6K16_RS25020"
                     /old_locus_tag="I6K16_25020"
     CDS             complement(661..1527)
                     /locus_tag="I6K16_RS25020"
                     /old_locus_tag="I6K16_25020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(1529..>1716)
                     /locus_tag="I6K16_RS25025"
                     /old_locus_tag="I6K16_25025"
                     /pseudo=""
     CDS             complement(1529..>1716)
                     /locus_tag="I6K16_RS25025"
                     /old_locus_tag="I6K16_25025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=3
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     Typing          complement(91..278)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
ORIGIN
        1 gatcatcacc gtttccggtg aatcgctccc tcctgcgccc ccacgttccc gccatatcga
       61 ttaccggata ccttttccgc ctttctccct tacgggacac gtggcgcttt ctcatagctc
      121 acgtcttctg gtatctcggg gcgacttagg cagttcgctc cgggctgggc tgtatgcagg
      181 aaccccccgt tcagcccgac tgctgcgcct tctccggtaa ctgttctctt gggtccaacc
      241 cggaaaagac accacaaagc gccactggca gcagccattg gtaaaagtca tgtgcgagat
      301 atttagagag tacttgaagt ggctgccgga gtgcggctac actagaagaa caattttggt
      361 gactcgtctc gcataagaca gttacctggt taagcagtct gcaagctgac ttaaccttcg
      421 atcaaaccgc cctgcaaggc ggttttttcg tttacaggca gcagattacg cgcagaaaaa
      481 aaggatctca agaggatcct ttgatctttt tgttacaaac gtctctattt gactcccctg
      541 agagcgtttt agcgcgcctc tgaccccctt ggttacattc cgacaccaga aacgctcccg
      601 ttttttacgt gcatttggca cggtatcgat ggaggccggg gggcaatcct gaacagaatg
      661 ttactcctct gagtattttc tgttaagaaa atatacactt agcacagtta caataaatcc
      721 taccccctgt aagaatgtga attgttcatc caaaaacaac catgacaaaa ataatgcaac
      781 tagcggaata aagtacaaca ttatccctgc caaatgaact gggagccaac gcaaggagtt
      841 caagtaaaaa caaaaagcta aaaaatattg taatattcca gatgaaaaaa caataatcac
      901 ggattccaac ggaagataaa ttgatgattt agatataaaa ataaagagcg atgacagtat
      961 aagggagaat gtcaactgtc cgctcaataa tgtgataggc tcaaacgatt taataaggcg
     1021 agacgatata acaacataaa atgctgccga taacacaccg gcaacaacaa gacaatatcc
     1081 aacaatatta ttcgatccat tactgatgtc tggcaaggct accaaaatac tgccaacaat
     1141 tgcacctata aggaacaata taaaatattg cggggaatta attttaactg agcaaataag
     1201 aacagacaac accaatataa acactgattc aagtgaaaaa ataattgatg cgcttcctgc
     1261 tgaaataaaa taaagtccgt agagtgtaaa agtatacgct aagaatggtt caaaaacgcc
     1321 tgtcgcataa gcaagtatcg cttttgagtt taatgggagt ttttttcttt ttataaaaag
     1381 aactatccaa gatagtatta ctgcactaca aatctgccag aaaaacaccc ctccggcatc
     1441 tagttcttca actccttttt tgctcattac gatagctgcc ccccatgaga acgctgctaa
     1501 aaaagcaaaa agcattcctt taatcatatt aatcatcctc tttctcataa aggggtttgt
     1561 tttcaaattt ccttggttga aaggagttaa aaaacataga tgcatcatct acaggaatac
     1621 caataaactc tccataataa ggatcatcta taggaaactc ttctaatgaa acataaaaca
     1681 atacattcca gttgaagatc attggatcac tatttt
//
