LOCUS       CP077360                1628 bp    DNA     linear   BCT 28-JUN-2021
DEFINITION  Escherichia coli strain FDAARGOS 1380 plasmid unnamed7.
ACCESSION   CP077360
VERSION     CP077360.1
DBLINK      BioProject: PRJNA231221
            BioSample: SAMN16357522
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1628)
  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  JOURNAL   Unpublished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 1628)
  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                   :: 1152.65x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/21/2021 16:44:09
            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)                     :: 5,077
            CDSs (total)                      :: 4,959
            Genes (coding)                    :: 4,807
            CDSs (with protein)               :: 4,807
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 71 of 152
            Pseudo Genes (incomplete)         :: 88 of 152
            Pseudo Genes (internal stop)      :: 34 of 152
            Pseudo Genes (multiple problems)  :: 38 of 152
            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..1628
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS 1380"
                     /culture_collection="FDA:FDAARGOS 1380"
                     /db_xref="taxon:562"
                     /plasmid="unnamed7"
                     /geo_loc_name="USA: MT"
                     /collected_by="Montana State U"
     gene            complement(195..671)
                     /locus_tag="I6L10_25380"
     CDS             complement(195..671)
                     /locus_tag="I6L10_25380"
                     /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="QXB65846.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     gene            1176..1302
                     /locus_tag="I6L10_25385"
                     /pseudo=""
     CDS             1176..1302
                     /locus_tag="I6L10_25385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001380222.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication protein"
                     /name="replication protein"
     Typing          751..859
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          complement(1062..1142)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="87.0"
                     /evalue="9.59e-28"
     Typing          1256..1514
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.0"
                     /coverage="99.0"
                     /evalue="1.09e-111"
ORIGIN
        1 gggggtctgg ggttctcccc agacggtttc cggttgcgct caaggcgctg ccggaaccgt
       61 ggcggcgcgg tcgttctggg gatcggggag caaaaacaag caagggattt tgaggcggca
      121 aaagagcaat gcaggataga caatcatggt caaaacgtta acacgtagcc cctgattgtc
      181 cgcctgccgc tggctcaatt tgaaaacatg gccatgattc ggcgctgaat atcaccgtct
      241 ttgttgacca gtgttttagt gacaaacgct gcatggtttt tcgtagtgtt gtatcccttc
      301 cagacttcat gtggatcgag ggcatacgca caaaccttac cagcaacggg gattctaact
      361 aatgcatttt ttgattctaa gtaattgagc caccgaataa ttgtgcttct gctaactcca
      421 agtttttcag ctaggaattg ctgatccgca acgacagcgc cacacgtagg atcgatatgc
      481 tccgctaaaa atgagtacag cttcagtgct gatatgcctt gactatcctt cagcagctct
      541 cgaacgcgtt cccaaccttt tggggatacc tgtgtaaacc ttgaattctt ctttgcttct
      601 tcgagatcct cggtgttttt ctttgcctca tctgaaagtt gtttcagtcg tttttctgaa
      661 tcaataaaca tgattttttc cctctgaaaa tcccatgcac taacgttggt tcaaatctaa
      721 gccatcatga cacatctgtg caacaccttg ttgcgtgttg tcgcatccag gatgcgacaa
      781 cgttgtgtca ccctggatgc gacaggtaaa caaaaaacac actaaaaaaa caacaactta
      841 caaatcggcg taaaagatct attctaggca agggtgttgc gcgcaacgca acgccctttt
      901 ggggtgtcgg ggcgaagccc tgacccagtc acgtagcgat agcggagtgt atactggctt
      961 attccgctac aagcctcgcc agccgtgatt tttgccagat ttcacgctct caacgctcaa
     1021 cagctccatc atggttttgc cgtccgttca ccgctaaaac gcctcagaaa tcgggacagg
     1081 atgtgcaaat gtaataccgt cacccgcgac gatattccgt ttgccgtctg gtcagggctt
     1141 cgccccgaca ccccgcatca gtgcgtacgt gctcaatgtg gtttccggtt ctcttccgct
     1201 tcctcgccca ctcgctcact acgttcggtc gctggggctg cggcgagcgg tgtcacctct
     1261 cgcatgttgt cggtgattcc gttgttgttc tttcggggat gagtcgccag atagcccctc
     1321 aaacgcgctc agaagctctc agacacacga aacgggtttt aaatgcccgt cagggcatgg
     1381 aaggcgcgaa aaacgcttac agaggctctc aggaggtcag gcgcgccgat acccctaacc
     1441 aggggctttc aggtcgctag gaaccgcgtc agccccctgc aaagcctatt tgcacggcac
     1501 aggcagctat tcggctggtt ggtggtcgta gaccgtcggt gttacagcga tgggggtctg
     1561 gggttctccc cagacggttt ccggttgcgc tcaaggcgct gccggaaccg tggcggcgcg
     1621 gtcgttct
//
