LOCUS       NZ_CP069467             1096 bp    DNA     linear   CON 17-JUN-2023
DEFINITION  Escherichia coli strain FDAARGOS_1249 plasmid unnamed8.
ACCESSION   NZ_CP069467
VERSION     NZ_CP069467.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357391
            Assembly: GCF_016889125.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1096)
  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  JOURNAL   Unpublished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 1096)
  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, SPAdes v. 3.14.1
            Genome Coverage                   :: 864.31x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/17/2023 04:58:46
            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)                     :: 5,157
            CDSs (total)                      :: 5,036
            Genes (coding)                    :: 4,746
            CDSs (with protein)               :: 4,746
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 76 of 290
            Pseudo Genes (incomplete)         :: 208 of 290
            Pseudo Genes (internal stop)      :: 41 of 290
            Pseudo Genes (multiple problems)  :: 34 of 290
            Pseudo Genes (short protein)      :: 4 of 290
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069467.1.
            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..1096
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1249"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1249"
                     /db_xref="taxon:562"
                     /plasmid="unnamed8"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            <1..209
                     /locus_tag="I6J79_RS25305"
     CDS             <1..209
                     /locus_tag="I6J79_RS25305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001334687.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=3
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_204147841.1"
                     /translation="LRAPLKRAERDSAANTAKRDVLPSENRKNASGSLSAHCIAMHESE
                     WRSVWAHTVPMRHIFGHFQFVNP"
                     /name="hypothetical protein"
     gene            749..943
                     /locus_tag="I6J79_RS25310"
                     /old_locus_tag="I6J79_25310"
     CDS             749..943
                     /locus_tag="I6J79_RS25310"
                     /old_locus_tag="I6J79_25310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041633.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(235..490)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(615..713)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1017..1096)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="96.0"
                     /evalue="1.76e-34"
ORIGIN
        1 cattacgcgc accgctaaaa cgcgctgaac gcgattctgc cgcgaacacc gcaaaaagag
       61 atgttttacc aagcgaaaac cggaaaaatg cgtcaggatc gctttcagct cactgcatag
      121 ctatgcatga aagtgaatgg cgatcggttt gggcgcatac ggtgcccatg agacacattt
      181 tcggacattt tcagttcgtg aatccctgac tcattgctac atatctgaac agacacccct
      241 agcagcgccc ccaggggcgt cctgtaaaaa aacacaccgc gccgctagca gcacccctaa
      301 tataaaatga tgttttttat gaaaatagtc agtaccaccc ctaaaaagcg gtgttggcgc
      361 agctacaaca ccgcgccgac accgcttttt taaatatcac aaagagagca agaagaacta
      421 atttgtcata actctctatt tataaagaaa aatcagcaaa aaattgtttt tgcgtggggt
      481 gtgggcattt caggcatgag aacagactcg cgtttttccg gagtatcagc ggaattattg
      541 attaagaaac actcgacgca gagcgaaatt ttatgcaaca gcggctgcac tgcacaggga
      601 ttatttatca gttgatatgc tgtgccatga tacgtcctaa aaaaacagga caggatgtgc
      661 aattgtaata ccgtcgcccg caacgtctta caattaccac ctggtcaggg tccacccgac
      721 acccggtact gacggagaac aacggaaggt gaacaaacag caacaaactg cgctgaatat
      781 ggcgcgattt atcaaaagcc agagcctgac actgcttgaa aaactggatg ctctggatgc
      841 cgacgaacag gcggccatgt gcgaacgact gcacgaactc gcggaagaac tccagaacag
      901 catccaggtt cgctttgaga ccgaaagtga aacaggaaca taacgaagct gacggaggcg
      961 ctcacggctt gtccgcgagc gttttcggca gcagacaagc ccgccagggc gcgtcagcgg
     1021 gtgtcggggc gaagccctga cccagtcacg tagcgatagc ggagtgtata ctggcttaac
     1081 tatgcggcat cagtgc
//
