LOCUS       NZ_CP070122             1329 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1298 plasmid unnamed7.
ACCESSION   NZ_CP070122
VERSION     NZ_CP070122.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357440
            Assembly: GCF_016904455.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1329)
  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  JOURNAL   Unpublished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 1329)
  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                   :: 963.3x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 05:37:30
            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)                     :: 5,299
            CDSs (total)                      :: 5,180
            Genes (coding)                    :: 4,969
            CDSs (with protein)               :: 4,969
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 211
            CDSs (without protein)            :: 211
            Pseudo Genes (ambiguous residues) :: 0 of 211
            Pseudo Genes (frameshifted)       :: 78 of 211
            Pseudo Genes (incomplete)         :: 128 of 211
            Pseudo Genes (internal stop)      :: 48 of 211
            Pseudo Genes (multiple problems)  :: 40 of 211
            Pseudo Genes (short protein)      :: 4 of 211
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP070122.1.
            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..1329
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1298"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1298"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..476
                     /locus_tag="I6K28_RS26200"
                     /old_locus_tag="I6K28_26135"
                     /pseudo=""
     CDS             <1..476
                     /locus_tag="I6K28_RS26200"
                     /old_locus_tag="I6K28_26135"
                     /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"
     gene            478..>1329
                     /locus_tag="I6K28_RS26205"
                     /old_locus_tag="I6K28_26140"
     CDS             478..>1329
                     /locus_tag="I6K28_RS26205"
                     /old_locus_tag="I6K28_26140"
                     /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_204628283.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYI
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVAIFLSWLFLDEQFTFLQGVGIIVTVLSEYLL
                     NRK"
                     /name="DMT family transporter"
ORIGIN
        1 gtgtaaatgc gccggggcat tttatgaggc tggcgataga aaaaggtttc tataaagatc
       61 aagaacaagc gttagcggat attcgtaaca tgactattca gtctgttggt aagggtgggt
      121 attcacatcc ggaagggatt tctacaacat ggcattcaga atctaatttg gatcgttttg
      181 gatgcccagt gcacaccggt aatagttctt attacagcgg tttttatcat actgatgtat
      241 taattccagg agaattaact aaggatgaaa gattgctcca tgaaatagaa aatagtgatc
      301 caatgatctt caactggaat gtattgtttt atgtttcatt agaagagttt cctatagatg
      361 atccttatta tggagagttt attggtattc ctgtagatga tgcatctatg ttttttaact
      421 cctttcaacc aaggaaattt gaaaacaaac ccctttatga gaaagaggat gattaatatg
      481 attaaaggaa tgctttttgc ttttttagca gcgttctcat ggggggcagc tatcgtaatg
      541 agcaaaaaag gagttgaaga actagatgcc ggaggggtgt ttttctggca gatttgtagt
      601 gcagtaatac tatcttggat agttcttttt ataaaaagaa aaaaactccc attaaactca
      661 aaagcgatac ttgcttatgc gacaggcgtt tttgaaccat tcttagcgta tacttttaca
      721 ctctacggac tttattttat ttcagcagga agcgcatcaa ttattttttc acttgaatca
      781 gtgtttatat tggtgttgtc tgttcttatt tgctcagtta aaattaattc cccgcaatat
      841 tttatattgt tccttatagg tgcaattgtt ggcagtattt tggtagcctt gccagacatc
      901 agtaatggat cgaataatat tgttggatat tgtcttgttg ttgccggtgt gttatcggca
      961 gcattttatg ttgttatatc gtctcgcctt attaaatcgt ttgagcctat cacattattg
     1021 agcggacagt tgacattctc ccttatactg tcatcgctct ttatttttat atctaaatca
     1081 tcaatttatc ttccgttgga atccgtgatt attgtttttt catctggaat attacaatat
     1141 attttagctt tttgttttta cttgaactcc ttgcgttggc tcccagttca tttggcaggg
     1201 ataatgttgt actttattcc gctagttgca atatttttgt catggttgtt tttggatgaa
     1261 caattcacat tcttacaggg ggtaggtatt attgtaactg tgctaagtga atatttgctt
     1321 aacaggaaa
//
