LOCUS       CP077269                1549 bp    DNA     circular BCT 28-JUN-2021
DEFINITION  Escherichia coli strain FDAARGOS_1378 plasmid unnamed3, complete
            sequence.
ACCESSION   CP077269
VERSION     CP077269.1
DBLINK      BioProject: PRJNA231221
            BioSample: SAMN16357520
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1549)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  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  JOURNAL   Unpublished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 1549)
  AUTHORS   Walk,S., Carlson,P., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J.,
            Ott,S., Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J.,
            Nadendla,S. and Yan,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-JUN-2021) Center for Devices and Radiological Health,
            US Food and Drug Administration, 10903 New Hampshire Avenue, White
            Oak, MD 20903, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 9.0.0, HGAP v. 4.0, SPAdes v. 3.14.1
            Genome Coverage                   :: 1155.05x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/21/2021 16:16:44
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,864
            CDSs (total)                      :: 4,742
            Genes (coding)                    :: 4,605
            CDSs (with protein)               :: 4,605
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 58 of 137
            Pseudo Genes (incomplete)         :: 68 of 137
            Pseudo Genes (internal stop)      :: 38 of 137
            Pseudo Genes (multiple problems)  :: 23 of 137
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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..1549
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1378"
                     /isolation_source="Seth Lab isolate"
                     /host="Seth Lab strain"
                     /culture_collection="FDA:FDAARGOS_1378"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA: MT"
                     /collected_by="Montana State U"
     gene            64..540
                     /locus_tag="I6L08_24315"
     CDS             64..540
                     /locus_tag="I6L08_24315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="QXA71871.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(985..1110)
                     /locus_tag="I6L08_24320"
     CDS             complement(985..1110)
                     /locus_tag="I6L08_24320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001431667.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /protein_id="QXA71870.1"
                     /translation="MWLPVLFRFLVDSLATLGHRLAASGITSRMLSVIPVLFFWG"
                     /name="replication protein"
     Typing          1132..1230
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          complement(1426..1534)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.273"
                     /coverage="100.0"
                     /evalue="1.97e-45"
     Typing          complement(772..1032)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="8.62e-98"
ORIGIN
        1 tgtgtcatga tggcttagat ttgaaccaac gttagtgcat gggattttca gagggaaaaa
       61 atcatgttta ttgattcaga aaaacgactg aaacaacttt cagatgaggc aaagaaaaac
      121 accgaggatc tcgaagaagc aaagaaaaat tcaaggttta cacaggtatc cccaaaaggt
      181 tgggaacgtg ttcgagagct gctgaaggat agccaaggca tatcagcact gaagctgtac
      241 tcatttttag cggagcatat cgatcctacg tgtggcgctg tcgttgcgga tcagcaattc
      301 ctagctgaaa aacttggagt tagcagaagc acaattattc ggtggctcaa ttacttagaa
      361 tcaaaaaatg cattagttag aatccccgtt gctggtaagg tttgtgcgta tgccctcgat
      421 ccacatgaag tctggaaggg atacaacact acgaaaaacc atgcagcgtt tgtcactaaa
      481 acactggtca acaaagacgg tgatattcag cgccgaatca tggccatgtt ttcaaattga
      541 gctagcggca ggcggacaat caggggctac gtgttaacgt tctgaccatg attgtctatc
      601 ctgcattgct cttttgccgc ctcaaaatcc tttgcgtgtt tttgctcccc gttctccaga
      661 aaaaaccgag ccgccacggt tccggcagcg ccttgagcgc taccggaaac cgtctgggga
      721 gaaccccaga cccccatcgc tgcaacaccg acggtctacg accacctacc aaccgcatgg
      781 ctgcctgttc cgtgcaaatg ggctttgcag ggggctggcg cggctcctgg cgacctgaaa
      841 gcccctggtt aggggtatcg gcgcgcttga cctcctgaga gcctctgtaa gcgtttttcg
      901 cgccttccat gccctggcgg gcatctaaaa cccgtttcgt gcgtctgaga gcttttgagc
      961 gcgtttgagg ggctatctgg cgactcatcc ccaaaagaac aacaccggga tcaccgacaa
     1021 catgcgagag gtgatcccgc tcgccgcaag tcgatgaccg agcgtagcga gcgaatcgac
     1081 gaggaagcgg aagagaaccg gaagccacat tgagcactta cgcactgatg cggggtgtcg
     1141 gggtgaagcc ctgaccaagt ggtaatcgta tcggcgtgca tgcgcggtta tacgattaca
     1201 catcctgtcc cgatttctga ggcgttttaa cggtgaacgg acggcaaaaa cacgatggag
     1261 ctgttgaacg tgaaaaccac gaaatctggc aaaaatcacg gctggcgagg cttgcatagg
     1321 agtaagccag tatacactcc gctatcgcta cgtgactggg tcagggcttc gccccgacac
     1381 ccccaaaggg cgttgcgttg cacgcaacac ccttgcctag aatagatctt ttacgccgat
     1441 ttgtaagtgg ttgttttttt agtgtgtttt ttatttacct gtcgcatcct ggatgacaca
     1501 acgttgtcgc atccaggatg cgacaacacg caacaaggtg ttgcacaga
//
